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Protein

Modification methylase DdeI

Gene

ddeIM

Organism
Desulfomicrobium norvegicum (strain DSM 1741 / NCIMB 8310) (Desulfovibrio baculatus (strain Norway 4)) (Desulfovibrio desulfuricans (strain Norway 4))
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

This methylase recognizes the double-stranded sequence CTNAG, causes specific methylation on C-1 on both strands, and protects the DNA from cleavage by the DdeI endonuclease.

Catalytic activityi

S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei76 – 761PROSITE-ProRule annotation

GO - Molecular functioni

  1. DNA (cytosine-5-)-methyltransferase activity Source: UniProtKB-EC
  2. DNA binding Source: InterPro

GO - Biological processi

  1. DNA restriction-modification system Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Biological processi

Restriction system

Keywords - Ligandi

S-adenosyl-L-methionine

Protein family/group databases

REBASEi3357. M.DdeI.

Names & Taxonomyi

Protein namesi
Recommended name:
Modification methylase DdeI (EC:2.1.1.37)
Short name:
M.DdeI
Alternative name(s):
Cytosine-specific methyltransferase DdeI
Gene namesi
Name:ddeIM
Synonyms:ddeM
OrganismiDesulfomicrobium norvegicum (strain DSM 1741 / NCIMB 8310) (Desulfovibrio baculatus (strain Norway 4)) (Desulfovibrio desulfuricans (strain Norway 4))
Taxonomic identifieri52561 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfomicrobiaceaeDesulfomicrobium

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 415415Modification methylase DdeIPRO_0000087873Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliP05302.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 373373SAM-dependent MTase C5-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.PROSITE-ProRule annotation
Contains 1 SAM-dependent MTase C5-type domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00675. dcm. 1 hit.
PROSITEiPS00094. C5_MTASE_1. 1 hit.
PS00095. C5_MTASE_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P05302-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNIIDLFAGC GGFSHGFKMA GYNSILAIEK DLWASQTYSF NNPNVSVITE
60 70 80 90 100
DITTLDPGDL KISVSDVDGI IGGPPCQGFS LSGNRDQKDP RNSLFVDFVR
110 120 130 140 150
FVKFFSPKFF VMENVLGILS MKTKSRQYVK DIIAEEFSNV GYKVCVIILN
160 170 180 190 200
ACDYGVPQSR QRVFFIGLKS DRPLNQQILT PPSKVIESEY TSLEEAISDL
210 220 230 240 250
PVIEAGEGGE VQDYPVAPRN KYQENMRKGS TCVYNHVAMR HTQRLVDRFA
260 270 280 290 300
AIKFGQSVKH VSEEHSQRKR GDANSISGKV FSQNNMRPYP YKPCPTVAAS
310 320 330 340 350
FQSNFIHPFY NRNFTAREGA RIQSFPDTYI FQGKRTTMSW EKHLSQYQQI
360 370 380 390 400
GNAVPPLLAQ ALAERISWYF ENINLINDSN VSIKRMVQRS FMSQLNLENN
410
VNVRQDDNYD KVHSF
Length:415
Mass (Da):47,081
Last modified:November 1, 1988 - v1
Checksum:i34DF5968E0414EED
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y00449 Genomic DNA. Translation: CAA68505.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y00449 Genomic DNA. Translation: CAA68505.1.

3D structure databases

ProteinModelPortaliP05302.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

REBASEi3357. M.DdeI.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di3.40.50.150. 1 hit.
InterProiIPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
SUPFAMiSSF53335. SSF53335. 1 hit.
TIGRFAMsiTIGR00675. dcm. 1 hit.
PROSITEiPS00094. C5_MTASE_1. 1 hit.
PS00095. C5_MTASE_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Nucleotide sequence of the DdeI restriction-modification system and characterization of the methylase protein."
    Sznyter L.A., Slatko B., Moran L., O'Donnell K.H., Brooks J.E.
    Nucleic Acids Res. 15:8249-8266(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].

Entry informationi

Entry nameiMTD1_DESNO
AccessioniPrimary (citable) accession number: P05302
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: November 1, 1988
Last modified: January 7, 2015
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. Restriction enzymes and methylases
    Classification of restriction enzymes and methylases and list of entries
  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.