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5EMJ

Crystal structure of PRMT5:MEP50 with Compound 8 and sinefungin

Functional Information from GO Data
ChainGOidnamespacecontents
A0000387biological_processspliceosomal snRNP assembly
A0000785cellular_componentchromatin
A0002039molecular_functionp53 binding
A0003714molecular_functiontranscription corepressor activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005694cellular_componentchromosome
A0005737cellular_componentcytoplasm
A0005794cellular_componentGolgi apparatus
A0005829cellular_componentcytosol
A0006325biological_processchromatin organization
A0006338biological_processchromatin remodeling
A0006353biological_processDNA-templated transcription termination
A0006355biological_processregulation of DNA-templated transcription
A0006479biological_processprotein methylation
A0007088biological_processregulation of mitotic nuclear division
A0008168molecular_functionmethyltransferase activity
A0008327molecular_functionmethyl-CpG binding
A0008469molecular_functionhistone arginine N-methyltransferase activity
A0010468biological_processregulation of gene expression
A0016274molecular_functionprotein-arginine N-methyltransferase activity
A0018216biological_processpeptidyl-arginine methylation
A0032259biological_processmethylation
A0032922biological_processcircadian regulation of gene expression
A0032991cellular_componentprotein-containing complex
A0034709cellular_componentmethylosome
A0035097cellular_componenthistone methyltransferase complex
A0035243molecular_functionprotein-arginine omega-N symmetric methyltransferase activity
A0035246biological_processpeptidyl-arginine N-methylation
A0035642molecular_functionhistone H3R17 methyltransferase activity
A0042054molecular_functionhistone methyltransferase activity
A0042118biological_processendothelial cell activation
A0042802molecular_functionidentical protein binding
A0043021molecular_functionribonucleoprotein complex binding
A0044020molecular_functionhistone H4R3 methyltransferase activity
A0044027biological_processnegative regulation of gene expression via chromosomal CpG island methylation
A0044877molecular_functionprotein-containing complex binding
A0045596biological_processnegative regulation of cell differentiation
A0045892biological_processnegative regulation of DNA-templated transcription
A0046982molecular_functionprotein heterodimerization activity
A0048026biological_processpositive regulation of mRNA splicing, via spliceosome
A0048511biological_processrhythmic process
A0048714biological_processpositive regulation of oligodendrocyte differentiation
A0062122molecular_functionhistone H3K37 methyltransferase activity
A0070372biological_processregulation of ERK1 and ERK2 cascade
A0070611molecular_functionhistone H3R2 methyltransferase activity
A0070888molecular_functionE-box binding
A0090161biological_processGolgi ribbon formation
A0097421biological_processliver regeneration
A0140592molecular_functionhistone H3R8 methyltransferase activity
A0140759molecular_functionhistone H3K56 methyltransferase activity
A0140903molecular_functionhistone H3R26 methyltransferase activity
A0140938molecular_functionhistone H3 methyltransferase activity
A0140984molecular_functionhistone H4K12 methyltransferase activity
A1901796biological_processregulation of signal transduction by p53 class mediator
A1904992biological_processpositive regulation of adenylate cyclase-inhibiting dopamine receptor signaling pathway
A1990259molecular_functionhistone H2AQ104 methyltransferase activity
B0000209biological_processprotein polyubiquitination
B0000387biological_processspliceosomal snRNP assembly
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0005794cellular_componentGolgi apparatus
B0005829cellular_componentcytosol
B0006357biological_processregulation of transcription by RNA polymerase II
B0006511biological_processubiquitin-dependent protein catabolic process
B0007309biological_processoocyte axis specification
B0008284biological_processpositive regulation of cell population proliferation
B0008285biological_processnegative regulation of cell population proliferation
B0008327molecular_functionmethyl-CpG binding
B0030374molecular_functionnuclear receptor coactivator activity
B0031465cellular_componentCul4B-RING E3 ubiquitin ligase complex
B0034709cellular_componentmethylosome
B0045893biological_processpositive regulation of DNA-templated transcription
B0048026biological_processpositive regulation of mRNA splicing, via spliceosome
B0060528biological_processsecretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development
B0060767biological_processepithelial cell proliferation involved in prostate gland development
B0060770biological_processnegative regulation of epithelial cell proliferation involved in prostate gland development
B1990756molecular_functionubiquitin-like ligase-substrate adaptor activity
Functional Information from PDB Data
site_idAC1
Number of Residues20
Detailsbinding site for residue SFG A 701
ChainResidue
ALEU315
ALYS393
ASER418
AASP419
AMET420
AGLU435
ALEU436
ACYS449
A5QJ702
AHOH846
AHOH849
ATYR324
AHOH854
ALYS333
ATYR334
AGLY365
AGLY367
APRO370
ALEU371
AGLU392

site_idAC2
Number of Residues14
Detailsbinding site for residue 5QJ A 702
ChainResidue
APHE300
ATYR304
ALEU312
ALEU319
APHE327
ALYS333
AGLU435
ALEU437
AGLU444
AVAL503
ASER578
ATRP579
ASFG701
AHOH823

site_idAC3
Number of Residues3
Detailsbinding site for residue GOL A 703
ChainResidue
ATYR297
AGLY575
AHOH825

site_idAC4
Number of Residues5
Detailsbinding site for residue GOL A 704
ChainResidue
APHE40
ATHR80
ATRP152
AGLN263
AHOH844

site_idAC5
Number of Residues5
Detailsbinding site for residue GOL A 705
ChainResidue
AARG52
AGLU53
ALYS60
AGLN66
AGLN109

site_idAC6
Number of Residues7
Detailsbinding site for residue GOL B 401
ChainResidue
BASN190
BILE192
BCYS208
BPRO211
BGLY212
BTYR213
BPHE230

Functional Information from PROSITE/UniProt
site_idPS00678
Number of Residues15
DetailsWD_REPEATS_1 Trp-Asp (WD) repeats signature. AVSGskDiCIKVWDL
ChainResidueDetails
BALA140-LEU154

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues1
DetailsMOD_RES: Phosphothreonine => ECO:0000269|Ref.8, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569
ChainResidueDetails
BTHR5
AGLU444

site_idSWS_FT_FI2
Number of Residues7
DetailsBINDING: BINDING => ECO:0000269|PubMed:23071334
ChainResidueDetails
ATYR324
APHE327
ALYS333
AGLU392
AASP419
AGLU435
AGLU444

site_idSWS_FT_FI3
Number of Residues1
DetailsSITE: Critical for specifying symmetric addition of methyl groups => ECO:0000250|UniProtKB:P46580
ChainResidueDetails
APHE327

site_idSWS_FT_FI4
Number of Residues1
DetailsMOD_RES: N-acetylalanine; in Protein arginine N-methyltransferase 5, N-terminally processed => ECO:0000269|Ref.15, ECO:0007744|PubMed:19413330, ECO:0007744|PubMed:22223895, ECO:0007744|PubMed:22814378
ChainResidueDetails
AALA2

227344

PDB entries from 2024-11-13

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