Detailed information    

experimental Experimentally validated

Overview

Name   ydiO   Type   Auxiliary factor
Locus tag   BSU_06060 Genome accession   NC_000964
Coordinates   655223..656506 (+) Length   427 a.a.
NCBI ID   NP_388487.1    Uniprot ID   -
Organism   Bacillus subtilis subsp. subtilis str. 168     
Function   digesting foreign DNA   
Defense system

Function

The frequency of transformation with plasmid pHV1401, which had three XhoI sites, was much lower in the wild-type strain, while it was somewhat higher in mutant strains carrying disrupted ydiO, ydiP, ydiR, ydiS, or ydjA.


Genomic Context

Location: 650223..661506
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BSU_06030 (BSU06030) groEL 650234..651868 (+) 1635 NP_388484.1 chaperonin large subunit -
  BSU_06040 (BSU06040) ydiM 653432..653812 (+) 381 NP_388485.1 hypothetical protein; prophage 3 region -
  BSU_06048 (BSU06048) ydzU 654071..654343 (+) 273 YP_003097688.1 hypothetical protein; prophage 3 region -
  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

Sequence

Protein


Download         Length: 427 a.a.        Molecular weight: 48909.28 Da        Isoelectric Point: 7.7989

>NTDB_id=76 BSU_06060 NP_388487.1 655223..656506(+) (ydiO) [Bacillus subtilis subsp. subtilis str. 168]
MTNFILNENKQLSLAIEDENIENFYIDGTDLVRKIIRRSGSGVTSRVPVLSTQDLENKNLHELYDESWLRMKNRPNTELT
TESINIADLFSGCGGLSLGVWEACRALGINPRFSFACDLNEAALSVYEKNFSPDFSLNESIEKHINGELGAPLTVEEQRI
KDKVKKIDFILAGPPCQGHSDLNNHTRRKDPRNALLMRVSRVIELFQPSSVLVENVPGIIHDKSGSFKEFKNHLKTQGYY
FDEIVLNAEKLGVSQARRRYFIFASKTPVSSLNQINEFYSTNSRPISWAISDLVENVGDDIFNTASEHSLENKRRIEYLF
ENNLFELPNSERPDCHRLKPHSYKSVYGRMYWDRPAPTITRGFGSTGQGRFVHSLLKRTITPHEAARIQFFPDFFNFGDL
RRRQYQDVIGNAVPSKLSYLLALHQLR

Nucleotide


Download         Length: 1284 bp        

>NTDB_id=76 BSU_06060 NP_388487.1 655223..656506(+) (ydiO) [Bacillus subtilis subsp. subtilis str. 168]
ATGACAAATTTTATTTTAAATGAAAATAAACAGTTATCATTGGCAATTGAAGATGAGAACATAGAAAATTTTTATATAGA
TGGTACAGATTTAGTCCGAAAGATAATCCGTAGATCAGGTTCAGGAGTTACATCACGGGTTCCGGTCCTTAGCACCCAAG
ATTTAGAAAACAAGAACCTTCATGAATTATACGATGAATCTTGGCTCCGTATGAAAAACAGACCCAATACTGAGCTCACT
ACTGAGAGTATAAATATTGCGGATTTATTTAGTGGATGTGGAGGTCTATCCTTAGGGGTTTGGGAGGCATGCCGTGCCCT
GGGGATAAATCCAAGATTTTCGTTTGCTTGTGATCTTAACGAAGCTGCCTTATCTGTGTACGAAAAAAACTTTTCTCCCG
ATTTTAGCTTGAATGAATCCATCGAAAAACATATTAATGGCGAGTTAGGTGCTCCATTAACTGTTGAAGAGCAAAGAATA
AAAGATAAGGTGAAAAAAATAGATTTCATTCTAGCAGGTCCTCCTTGCCAAGGGCATTCTGATCTTAATAACCATACTAG
ACGAAAAGACCCTAGAAACGCTTTACTAATGAGAGTAAGTAGAGTTATAGAGTTGTTCCAACCTTCTTCAGTATTAGTGG
AGAATGTACCAGGAATTATTCATGATAAATCTGGTTCTTTTAAAGAATTTAAGAATCATTTAAAGACACAAGGTTATTAC
TTCGATGAAATCGTACTAAATGCTGAAAAACTAGGTGTTTCACAAGCACGTCGTAGATATTTTATTTTTGCTTCAAAAAC
TCCTGTATCTTCCTTAAATCAAATAAATGAATTTTATTCAACCAATAGTAGGCCAATTAGTTGGGCAATATCAGATTTAG
TAGAAAATGTAGGTGATGATATATTCAACACTGCTTCCGAGCATTCATTGGAAAACAAAAGGAGAATAGAATATCTTTTT
GAAAATAACTTGTTTGAATTACCTAATTCAGAAAGACCGGATTGTCATCGGCTAAAACCACATTCATACAAATCTGTGTA
TGGCAGAATGTATTGGGATAGACCTGCTCCCACTATAACCAGAGGGTTTGGATCAACAGGTCAAGGGAGATTTGTTCATT
CTTTGTTAAAGAGAACGATAACTCCCCATGAAGCAGCTAGGATTCAGTTCTTCCCGGACTTTTTTAACTTTGGTGACCTT
CGGAGGAGACAGTATCAAGACGTTATCGGTAATGCTGTGCCTTCCAAACTATCCTATTTATTAGCATTACATCAATTAAG
ATAA

Domains

Predicted by InterproScan.

C-5 cytosine-specific DNA methylase (DNA_methylase)

(85-418)


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]