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Protein

DNA adenine methyltransferase YhdJ

Gene

yhdJ

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Methylates the second adenine of the NsiI recognition sequence (5'-ATGCAT-3').1 Publication

Catalytic activityi

S-adenosyl-L-methionine + DNA adenine = S-adenosyl-L-homocysteine + DNA 6-methylaminopurine.1 Publication

GO - Molecular functioni

  1. DNA binding Source: InterPro
  2. N-methyltransferase activity Source: InterPro
  3. site-specific DNA-methyltransferase (adenine-specific) activity Source: EcoCyc

GO - Biological processi

  1. DNA methylation on adenine Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciEcoCyc:EG11498-MONOMER.
ECOL316407:JW5543-MONOMER.
MetaCyc:EG11498-MONOMER.

Protein family/group databases

REBASEi3885. M.EcoKII.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA adenine methyltransferase YhdJ (EC:2.1.1.72)
Gene namesi
Name:yhdJ
Ordered Locus Names:b3262, JW5543
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11498. yhdJ.

Pathology & Biotechi

Disruption phenotypei

Mutants are viable and show no significant growth deficiency and no alteration of cell morphology.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 294294DNA adenine methyltransferase YhdJPRO_0000088000Add
BLAST

Proteomic databases

PRIDEiP28638.

Expressioni

Gene expression databases

GenevestigatoriP28638.

Interactioni

Protein-protein interaction databases

DIPiDIP-12296N.
IntActiP28638. 34 interactions.
STRINGi511145.b3262.

Structurei

3D structure databases

ProteinModelPortaliP28638.
SMRiP28638. Positions 26-249.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the N(4)/N(6)-methyltransferase family.Curated

Phylogenomic databases

eggNOGiCOG0863.
HOGENOMiHOG000125330.
InParanoidiP28638.
KOiK07319.
OMAiIASAPRM.
OrthoDBiEOG6FV84T.
PhylomeDBiP28638.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR002941. DNA_methylase_N4/N6.
IPR002052. DNA_methylase_N6_adenine_CS.
IPR001091. RM_Methylase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01555. N6_N4_Mtase. 1 hit.
[Graphical view]
PRINTSiPR00508. S21N4MTFRASE.
SUPFAMiSSF53335. SSF53335. 1 hit.
PROSITEiPS00092. N6_MTASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P28638-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRTGCEPTRF GNEAKTIIHG DALAELKKIP AESVDLIFAD PPYNIGKNFD
60 70 80 90 100
GLIEAWKEDL FIDWLFEVIA ECHRVLKKQG SMYIMNSTEN MPFIDLQCRK
110 120 130 140 150
LFTIKSRIVW SYDSSGVQAK KHYGSMYEPI LMMVKDAKNY TFNGDAILVE
160 170 180 190 200
AKTGSQRALI DYRKNPPQPY NHQKVPGNVW DFPRVRYLMD EYENHPTQKP
210 220 230 240 250
EALLKRIILA SSNPGDIVLD PFAGSFTTGA VAIASGRKFI GIEINSEYIK
260 270 280 290
MGLRRLDVAS HYSAEELAKV KKRKTGNLSK RSRLSEVDPD LITK
Length:294
Mass (Da):33,397
Last modified:December 15, 1998 - v3
Checksum:i6BCC49D9A571884B
GO

Sequence cautioni

The sequence AAA58066.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281K → N in AAA23784 (PubMed:1459953).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18997 Genomic DNA. Translation: AAA58066.1. Different initiation.
U00096 Genomic DNA. Translation: AAC76294.2.
AP009048 Genomic DNA. Translation: BAE77303.1.
M95784 Genomic DNA. Translation: AAA23784.1.
J03245 Genomic DNA. Translation: AAA83857.1.
PIRiH65118.
RefSeqiNP_417728.4. NC_000913.3.
YP_491444.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC76294; AAC76294; b3262.
BAE77303; BAE77303; BAE77303.
GeneIDi12933456.
947695.
KEGGiecj:Y75_p3180.
eco:b3262.
PATRICi32121954. VBIEscCol129921_3361.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18997 Genomic DNA. Translation: AAA58066.1. Different initiation.
U00096 Genomic DNA. Translation: AAC76294.2.
AP009048 Genomic DNA. Translation: BAE77303.1.
M95784 Genomic DNA. Translation: AAA23784.1.
J03245 Genomic DNA. Translation: AAA83857.1.
PIRiH65118.
RefSeqiNP_417728.4. NC_000913.3.
YP_491444.1. NC_007779.1.

3D structure databases

ProteinModelPortaliP28638.
SMRiP28638. Positions 26-249.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-12296N.
IntActiP28638. 34 interactions.
STRINGi511145.b3262.

Protein family/group databases

REBASEi3885. M.EcoKII.

Proteomic databases

PRIDEiP28638.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76294; AAC76294; b3262.
BAE77303; BAE77303; BAE77303.
GeneIDi12933456.
947695.
KEGGiecj:Y75_p3180.
eco:b3262.
PATRICi32121954. VBIEscCol129921_3361.

Organism-specific databases

EchoBASEiEB1461.
EcoGeneiEG11498. yhdJ.

Phylogenomic databases

eggNOGiCOG0863.
HOGENOMiHOG000125330.
InParanoidiP28638.
KOiK07319.
OMAiIASAPRM.
OrthoDBiEOG6FV84T.
PhylomeDBiP28638.

Enzyme and pathway databases

BioCyciEcoCyc:EG11498-MONOMER.
ECOL316407:JW5543-MONOMER.
MetaCyc:EG11498-MONOMER.

Miscellaneous databases

PROiP28638.

Gene expression databases

GenevestigatoriP28638.

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR002941. DNA_methylase_N4/N6.
IPR002052. DNA_methylase_N6_adenine_CS.
IPR001091. RM_Methylase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01555. N6_N4_Mtase. 1 hit.
[Graphical view]
PRINTSiPR00508. S21N4MTFRASE.
SUPFAMiSSF53335. SSF53335. 1 hit.
PROSITEiPS00092. N6_MTASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. "Dramatic changes in Fis levels upon nutrient upshift in Escherichia coli."
    Ball C.A., Osuna R., Ferguson K.C., Johnson R.C.
    J. Bacteriol. 174:8043-8056(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-100.
  4. "Isolation of the gene encoding the Hin recombinational enhancer binding protein."
    Johnson R.C., Ball C.A., Pfeffer D., Simon M.I.
    Proc. Natl. Acad. Sci. U.S.A. 85:3484-3488(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-11.
    Strain: K12.
  5. "YhdJ, a nonessential CcrM-like DNA methyltransferase of Escherichia coli and Salmonella enterica."
    Broadbent S.E., Balbontin R., Casadesus J., Marinus M.G., van der Woude M.
    J. Bacteriol. 189:4325-4327(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, CATALYTIC ACTIVITY, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiYHDJ_ECOLI
AccessioniPrimary (citable) accession number: P28638
Secondary accession number(s): Q2M8V3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 15, 1998
Last modified: January 7, 2015
This is version 118 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.