Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6P7I

Crystal structure of Human PRMT6 in complex with S-Adenosyl-L-Homocysteine and YS17-117 Compound

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0003682	molecular_function	chromatin binding
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005730	cellular_component	nucleolus
A	0006281	biological_process	DNA repair
A	0006284	biological_process	base-excision repair
A	0006325	biological_process	chromatin organization
A	0006338	biological_process	chromatin remodeling
A	0006351	biological_process	DNA-templated transcription
A	0006355	biological_process	regulation of DNA-templated transcription
A	0006974	biological_process	DNA damage response
A	0008168	molecular_function	methyltransferase activity
A	0008469	molecular_function	obsolete histone arginine N-methyltransferase activity
A	0010821	biological_process	regulation of mitochondrion organization
A	0016274	molecular_function	protein-arginine N-methyltransferase activity
A	0016740	molecular_function	transferase activity
A	0018216	biological_process	peptidyl-arginine methylation
A	0032259	biological_process	methylation
A	0033554	biological_process	cellular response to stress
A	0035241	molecular_function	protein-arginine omega-N monomethyltransferase activity
A	0035242	molecular_function	protein-arginine omega-N asymmetric methyltransferase activity
A	0042054	molecular_function	histone methyltransferase activity
A	0042393	molecular_function	histone binding
A	0044020	molecular_function	histone H4R3 methyltransferase activity
A	0045652	biological_process	regulation of megakaryocyte differentiation
A	0045892	biological_process	negative regulation of DNA-templated transcription
A	0070611	molecular_function	histone H3R2 methyltransferase activity
A	0070612	molecular_function	histone H2AR3 methyltransferase activity
A	0090068	biological_process	positive regulation of cell cycle process
A	0140938	molecular_function	histone H3 methyltransferase activity
A	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process
B	0003682	molecular_function	chromatin binding
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005654	cellular_component	nucleoplasm
B	0005730	cellular_component	nucleolus
B	0006281	biological_process	DNA repair
B	0006284	biological_process	base-excision repair
B	0006325	biological_process	chromatin organization
B	0006338	biological_process	chromatin remodeling
B	0006351	biological_process	DNA-templated transcription
B	0006355	biological_process	regulation of DNA-templated transcription
B	0006974	biological_process	DNA damage response
B	0008168	molecular_function	methyltransferase activity
B	0008469	molecular_function	obsolete histone arginine N-methyltransferase activity
B	0010821	biological_process	regulation of mitochondrion organization
B	0016274	molecular_function	protein-arginine N-methyltransferase activity
B	0016740	molecular_function	transferase activity
B	0018216	biological_process	peptidyl-arginine methylation
B	0032259	biological_process	methylation
B	0033554	biological_process	cellular response to stress
B	0035241	molecular_function	protein-arginine omega-N monomethyltransferase activity
B	0035242	molecular_function	protein-arginine omega-N asymmetric methyltransferase activity
B	0042054	molecular_function	histone methyltransferase activity
B	0042393	molecular_function	histone binding
B	0044020	molecular_function	histone H4R3 methyltransferase activity
B	0045652	biological_process	regulation of megakaryocyte differentiation
B	0045892	biological_process	negative regulation of DNA-templated transcription
B	0070611	molecular_function	histone H3R2 methyltransferase activity
B	0070612	molecular_function	histone H2AR3 methyltransferase activity
B	0090068	biological_process	positive regulation of cell cycle process
B	0140938	molecular_function	histone H3 methyltransferase activity
B	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process
C	0003682	molecular_function	chromatin binding
C	0005515	molecular_function	protein binding
C	0005634	cellular_component	nucleus
C	0005654	cellular_component	nucleoplasm
C	0005730	cellular_component	nucleolus
C	0006281	biological_process	DNA repair
C	0006284	biological_process	base-excision repair
C	0006325	biological_process	chromatin organization
C	0006338	biological_process	chromatin remodeling
C	0006351	biological_process	DNA-templated transcription
C	0006355	biological_process	regulation of DNA-templated transcription
C	0006974	biological_process	DNA damage response
C	0008168	molecular_function	methyltransferase activity
C	0008469	molecular_function	obsolete histone arginine N-methyltransferase activity
C	0010821	biological_process	regulation of mitochondrion organization
C	0016274	molecular_function	protein-arginine N-methyltransferase activity
C	0016740	molecular_function	transferase activity
C	0018216	biological_process	peptidyl-arginine methylation
C	0032259	biological_process	methylation
C	0033554	biological_process	cellular response to stress
C	0035241	molecular_function	protein-arginine omega-N monomethyltransferase activity
C	0035242	molecular_function	protein-arginine omega-N asymmetric methyltransferase activity
C	0042054	molecular_function	histone methyltransferase activity
C	0042393	molecular_function	histone binding
C	0044020	molecular_function	histone H4R3 methyltransferase activity
C	0045652	biological_process	regulation of megakaryocyte differentiation
C	0045892	biological_process	negative regulation of DNA-templated transcription
C	0070611	molecular_function	histone H3R2 methyltransferase activity
C	0070612	molecular_function	histone H2AR3 methyltransferase activity
C	0090068	biological_process	positive regulation of cell cycle process
C	0140938	molecular_function	histone H3 methyltransferase activity
C	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process
D	0003682	molecular_function	chromatin binding
D	0005515	molecular_function	protein binding
D	0005634	cellular_component	nucleus
D	0005654	cellular_component	nucleoplasm
D	0005730	cellular_component	nucleolus
D	0006281	biological_process	DNA repair
D	0006284	biological_process	base-excision repair
D	0006325	biological_process	chromatin organization
D	0006338	biological_process	chromatin remodeling
D	0006351	biological_process	DNA-templated transcription
D	0006355	biological_process	regulation of DNA-templated transcription
D	0006974	biological_process	DNA damage response
D	0008168	molecular_function	methyltransferase activity
D	0008469	molecular_function	obsolete histone arginine N-methyltransferase activity
D	0010821	biological_process	regulation of mitochondrion organization
D	0016274	molecular_function	protein-arginine N-methyltransferase activity
D	0016740	molecular_function	transferase activity
D	0018216	biological_process	peptidyl-arginine methylation
D	0032259	biological_process	methylation
D	0033554	biological_process	cellular response to stress
D	0035241	molecular_function	protein-arginine omega-N monomethyltransferase activity
D	0035242	molecular_function	protein-arginine omega-N asymmetric methyltransferase activity
D	0042054	molecular_function	histone methyltransferase activity
D	0042393	molecular_function	histone binding
D	0044020	molecular_function	histone H4R3 methyltransferase activity
D	0045652	biological_process	regulation of megakaryocyte differentiation
D	0045892	biological_process	negative regulation of DNA-templated transcription
D	0070611	molecular_function	histone H3R2 methyltransferase activity
D	0070612	molecular_function	histone H2AR3 methyltransferase activity
D	0090068	biological_process	positive regulation of cell cycle process
D	0140938	molecular_function	histone H3 methyltransferase activity
D	2000059	biological_process	negative regulation of ubiquitin-dependent protein catabolic process

Functional Information from PDB Data

site_id	AC1
Number of Residues	21
Details	binding site for residue SAH A 401

Chain	Residue
A	TYR48
A	SER114
A	PRO139
A	VAL140
A	GLU141
A	GLU155
A	MET166
A	SER169
A	O3P402
A	HOH515
A	HOH542
A	TYR51
A	HOH580
A	HOH585
A	MET60
A	ARG66
A	GLY90
A	ALA91
A	LEU96
A	GLU112
A	ALA113

site_id	AC2
Number of Residues	12
Details	binding site for residue O3P A 402

Chain	Residue
A	TYR47
A	CYS50
A	TYR51
A	VAL56
A	GLU59
A	GLU155
A	MET157
A	TYR159
A	GLU164
A	HIS317
A	SAH401
A	HOH616

site_id	AC3
Number of Residues	9
Details	binding site for residue GOL A 403

Chain	Residue
A	SER242
A	GLY243
A	PRO311
A	HOH622
B	GLY243
B	VAL246
B	TYR280
B	PHE312
B	HOH549

site_id	AC4
Number of Residues	22
Details	binding site for residue SAH B 401

Chain	Residue
B	TYR47
B	TYR48
B	TYR51
B	MET60
B	ARG66
B	GLY90
B	ALA91
B	LEU96
B	GLU112
B	ALA113
B	SER114
B	PRO139
B	VAL140
B	GLU141
B	GLU155
B	MET166
B	SER169
B	O3P402
B	HOH552
B	HOH579
B	HOH612
B	HOH613

site_id	AC5
Number of Residues	12
Details	binding site for residue O3P B 402

Chain	Residue
B	TYR47
B	CYS50
B	TYR51
B	VAL56
B	GLU59
B	GLU155
B	MET157
B	TYR159
B	GLU164
B	HIS317
B	SAH401
B	HOH606

site_id	AC6
Number of Residues	6
Details	binding site for residue GOL B 403

Chain	Residue
B	ALA254
B	GLN255
B	VAL271
B	GLY272
B	HOH521
B	HOH594

site_id	AC7
Number of Residues	23
Details	binding site for residue SAH C 401

Chain	Residue
C	O3P402
C	HOH514
C	HOH542
C	HOH565
C	HOH606
C	HOH618
C	TYR48
C	TYR51
C	MET60
C	ARG66
C	GLY90
C	ALA91
C	ILE95
C	LEU96
C	GLU112
C	ALA113
C	SER114
C	PRO139
C	VAL140
C	GLU141
C	GLU155
C	MET166
C	SER169

site_id	AC8
Number of Residues	13
Details	binding site for residue O3P C 402

Chain	Residue
C	TYR47
C	CYS50
C	TYR51
C	VAL56
C	GLU59
C	GLU155
C	MET157
C	TYR159
C	GLU164
C	HIS317
C	TRP318
C	SAH401
C	HOH638

site_id	AC9
Number of Residues	23
Details	binding site for residue SAH D 401

Chain	Residue
D	TYR48
D	TYR51
D	MET60
D	ARG66
D	GLY90
D	ALA91
D	ILE95
D	LEU96
D	GLU112
D	ALA113
D	SER114
D	GLY138
D	PRO139
D	VAL140
D	GLU141
D	GLU155
D	MET166
D	SER169
D	O3S402
D	HOH526
D	HOH602
D	HOH604
D	HOH605

site_id	AD1
Number of Residues	15
Details	binding site for Di-peptide O3S D 402 and CYS D 50

Chain	Residue
D	LEU46
D	TYR47
D	TYR48
D	GLU49
D	TYR51
D	SER52
D	ASP53
D	GLU59
D	GLU155
D	MET157
D	TYR159
D	GLU164
D	HIS317
D	SAH401
D	HOH641

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	8
Details	Active site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	4
Details	Binding site: {"evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	16
Details	Binding site: {}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	5
Details	Modified residue: {"description":"Asymmetric dimethylarginine; by autocatalysis","evidences":[{"source":"PubMed","id":"23866860","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"32828318","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	330
Details	Domain: {"description":"SAM-dependent MTase PRMT-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU01015","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)