Structure of PDB 3pt6 Chain B

Receptor sequence

>3pt6B (length=915) Species: 10090 (Mus musculus)

AMKRRRCGVCEVCQQPECGKCKACKDMVKFGGTGRSKQACLKRRCPNLAV
KEADDDEEADDDVSEMPSPKKLHQGKKKKQNKDRISWLGQPMKIEENRTY
YQKVSIDEEMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNGQMMFHAHW
FCAGTDTVLGATSDPLELFLVGECENMQLSYIHSKVKVIYKAPSENWAME
GGDGKTYFFQLWYNQEYARFESPPKTQPTEDNKHKFCLSCIRLAELRQKE
MPKVLEQIEEVDGRVYCSSITKNGVVYRLGDSVYLPPEAFTFNIKVASPV
KRPKKDPVNETLYPEHYRKYSDYIKGSNLDAPEPYRIGRIKEIHCGKKKG
KVNEADIKLRLYKFYRPENTHRSYNGSYHTDINMLYWSDEEAVVNFSDVQ
GRCTVEYGEDLLESIQDYSQGGPDRFYFLEAYNSKTKNFEDPPNHARSPG
NKKLPKLRTLDVFSGCGGLSEGFHQAGISETLWAIEMWDPAAQAFRLNNP
GTTVFTEDCNVLLKLVMAGEVTNSLGQRLPQKGDVEMLCGGPPCQGFSGM
NRFNSRTYSKFKNSLVVSFLSYCDYYRPRFFLLENVRNFVSYRRSMVLKL
TLRCLVRMGYQCTFGVLQAGQYGVAQTRRRAIILAAAPGEKLPLFPEPLH
VFAPRACQLSVVVDDKKFVSNITRLSSGPFRTITVRDTMSDLPEIQNGAS
NSEIPYNGEPLSWFQRQLRGSHYQPILRDHICKDMSPLVAARMRHIPLFP
GSDWRDLPNIQVRLGDGVIAHKLQYTFHDVKNGYSSTGALRGVCSCAEGK
ACDPESRQFSTLIPWCLPHTGNRHNHWAGLYGRLEWDGFFSTTVTNPEPM
GKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPP
LAKAIGLEIKLCLLS

3D structure

• PDB: 3pt6 Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation.
• Chain: B
• Resolution: 3.0 Å

Enzymatic activity

• Enzyme Commision number: 2.1.1.37: DNA (cytosine-5-)-methyltransferase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	B	R653 K686 Q687 A688 N1236 R1241 R1278	R4 K37 Q38 A39 N551 R556 R593
BS02	dna	B	R654 R684 K686 Q687	R5 R35 K37 Q38
BS03	ZN	B	H796 C823 C897 C900	H147 C174 C237 C240
BS04	SAH	B	F1148 S1149 G1150 G1153 E1171 M1172 D1193 C1194 A1581 V1582	F463 S464 G465 G468 E486 M487 D508 C509 A896 V897
BS05	ZN	B	C659 C662 C694	C10 C13 C45
BS06	ZN	B	C670 C689	C21 C40
BS07	ZN	B	C1479 C1481 H1504	C794 C796 H819

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003682 chromatin binding
• GO:0008168 methyltransferase activity
• GO:0008270 zinc ion binding

External links

• PDB: RCSB:3pt6, PDBe:3pt6, PDBj:3pt6
• PDBsum: 3pt6
• PubMed: 21163962
• UniProt: P13864|DNMT1_MOUSE DNA (cytosine-5)-methyltransferase 1 (Gene Name=Dnmt1)