Structure of PDB 6p7z Chain A

Receptor sequence
>6p7zA (length=425) Species: 9606 (Homo sapiens) [Search protein sequence]
PLKVEKFATANRGNGLRAVTPLRPGELLFRSDPLAYTVCKGSRGVVCDRC
LLGKEKLMRCSQCRVAKYCSAKCQKKAWPDHKRECKCLKSCPRYPPDSVR
LLGRVVFKLMDGAPSESEKLYSFYDLESNINKLTEDKKEGLRQLVMTFQH
FMREEIQDASQLPPAFDLFEAFAKVICNSFTICNAEMQEVGVGLYPSISL
LNHSCDPNCSIVFNGPHLLLRAVRDIEVGEELTICYLDMLMTSEERRKQL
RDQYCFECDCFRCQTQDKDADMLTGDEQVWKEVQESLKKIEELKAHWKWE
QVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTR
TMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVT
HGREHSLIEDLILLLEECDANIRAS
3D structure
PDB6p7z Discovery of Isoxazole Amides as Potent and Selective SMYD3 Inhibitors.
ChainA
Resolution1.19 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
Enzymatic activity
Enzyme Commision number 2.1.1.354: [histone H3]-lysine(4) N-trimethyltransferase.
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 ZN A C208 C261 C263 C266 C205 C258 C260 C263
BS02 ZN A C62 C65 H83 C87 C60 C63 H81 C85
BS03 ZN A C49 C52 C71 C75 C47 C50 C69 C73
BS04 SAM A R14 N16 Y124 N132 N181 S202 N205 H206 Y239 Y257 F259 R12 N14 Y121 N129 N178 S199 N202 H203 Y236 Y254 F256
BS05 O41 A N181 F183 T184 Y239 Y257 H366 V368 N178 F180 T181 Y236 Y254 H363 V365 BindingDB: IC50=5010nM
Gene Ontology
Molecular Function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding
GO:0000993 RNA polymerase II complex binding
GO:0001162 RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding
GO:0005515 protein binding
GO:0008168 methyltransferase activity
GO:0042054 histone methyltransferase activity
GO:0046872 metal ion binding
GO:0140939 histone H4 methyltransferase activity
GO:0140954 histone H3K36 dimethyltransferase activity
GO:0140999 histone H3K4 trimethyltransferase activity
Biological Process
GO:0006325 chromatin organization
GO:0006334 nucleosome assembly
GO:0014904 myotube cell development
GO:0032259 methylation
GO:0045184 establishment of protein localization
GO:0045944 positive regulation of transcription by RNA polymerase II
GO:0071549 cellular response to dexamethasone stimulus
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6p7z, PDBe:6p7z, PDBj:6p7z
PDBsum6p7z
PubMed32071679
UniProtQ9H7B4|SMYD3_HUMAN Histone-lysine N-methyltransferase SMYD3 (Gene Name=SMYD3)

[Back to BioLiP]