Detailed information    

experimental Experimentally validated

Overview

Name   ydiA   Type   Auxiliary factor
Locus tag   BSU_06110 Genome accession   NC_000964
Coordinates   661630..663027 (+) Length   465 a.a.
NCBI ID   NP_388492.1    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: 656630..668027
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  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 -
  BSU_06140 (BSU06140) gutR 664775..667264 (-) 2490 NP_388495.1 transcriptional regulator of the glucitol operon -

Sequence

Protein


Download         Length: 465 a.a.        Molecular weight: 54335.96 Da        Isoelectric Point: 8.4269

>NTDB_id=75 BSU_06110 NP_388492.1 661630..663027(+) (ydiA) [Bacillus subtilis subsp. subtilis str. 168]
MDKSSKFFFEDQKYNKERIVRVLGGNLALLKSKGILYEDSSGDLIFNYVGVISNGRNVIFILPKYCNRHLDEHSKRTLFN
KLLKIFKKYSGLNKSRESDYFVSELDSDEVSDFMIADYLLNDFSLNGYYQKKFTEYEIDGEGIIDWSKTVNEITPVFSKG
VPYYFSTYNEVVQKDEYHLIVKIHKWALSKYFNDFGVILGFTGLEFDKSCDGMKILDYADFFGSVINKEIVNTYVDRDVK
LLKALKTAIDREENQFSKRPTLSLYGTKYFHRVWEEVCKTVFSHVNEYVKKISRPNWINFTDIEVNKEKKTLEPDIIKAF
EYRSKEYFLILDAKYYNINFDGKKLEGNPGVEDITKQLLYDKALEKLSRGKTKHNAFLFPSSNSTNTFKVFGSVDFDFLD
IAAVTLVYISAEQVYNLYLENKTFSTDDLFKFVSEINKSKKRHSVITSTLYGNMFLFTKRLSDKN

Nucleotide


Download         Length: 1398 bp        

>NTDB_id=75 BSU_06110 NP_388492.1 661630..663027(+) (ydiA) [Bacillus subtilis subsp. subtilis str. 168]
ATGGATAAGTCAAGTAAGTTCTTCTTTGAAGATCAAAAATACAATAAAGAAAGGATTGTACGTGTACTCGGTGGTAATTT
AGCTTTACTCAAAAGTAAAGGTATATTATATGAAGATTCTAGTGGGGATTTAATATTTAACTATGTAGGTGTTATATCTA
ATGGGCGCAATGTAATATTCATTTTGCCTAAATACTGTAACAGGCACTTAGATGAACATTCAAAGCGGACTTTGTTTAAT
AAGTTGCTGAAGATTTTTAAAAAATATTCAGGTTTAAATAAAAGCCGGGAATCTGATTATTTCGTATCGGAGCTAGATAG
TGATGAAGTCTCCGACTTTATGATAGCAGATTATTTGCTTAATGATTTCTCATTGAATGGGTATTATCAAAAAAAATTTA
CTGAATATGAAATTGATGGAGAAGGAATTATAGATTGGAGTAAGACAGTTAATGAAATTACCCCAGTATTCTCAAAGGGA
GTTCCATATTATTTCAGTACTTATAATGAAGTGGTACAAAAAGACGAGTATCACTTGATAGTTAAAATTCATAAATGGGC
TTTAAGTAAATATTTTAATGATTTCGGAGTCATTTTAGGTTTTACGGGACTAGAATTTGATAAATCCTGTGATGGTATGA
AAATTTTGGACTACGCTGATTTTTTTGGCTCAGTAATAAATAAAGAAATCGTGAACACATATGTTGATCGTGACGTTAAA
TTGTTAAAGGCATTGAAAACCGCAATTGATAGGGAAGAGAATCAGTTTTCTAAACGACCCACTCTTTCTCTGTATGGAAC
AAAATACTTTCACAGAGTATGGGAGGAAGTATGTAAGACCGTATTTTCCCATGTTAATGAATACGTAAAAAAGATATCAA
GGCCAAATTGGATTAACTTTACGGATATAGAGGTTAATAAAGAGAAAAAAACACTAGAACCCGATATTATTAAGGCTTTC
GAATACCGTTCAAAAGAATACTTTTTAATATTAGATGCTAAATATTATAATATAAATTTTGACGGAAAAAAGCTGGAGGG
GAATCCTGGGGTTGAAGATATAACTAAGCAGCTGTTATATGATAAGGCACTTGAAAAACTGTCCAGAGGTAAAACAAAAC
ATAATGCTTTTCTGTTTCCTTCCTCTAATTCAACCAATACCTTTAAAGTATTTGGTTCTGTTGATTTTGATTTTCTTGAT
ATAGCCGCTGTAACTCTTGTTTATATTTCTGCTGAACAAGTTTATAACTTATATCTTGAAAATAAAACATTTTCCACTGA
TGACTTATTTAAATTTGTAAGTGAAATTAATAAGTCAAAAAAACGACATAGCGTTATAACTTCAACATTGTATGGTAATA
TGTTTTTGTTTACAAAAAGATTAAGTGATAAAAATTAG

Domains

Predicted by InterproScan.

LlaJI restriction endonuclease (RE_LlaJI)

(48-412)


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]