Structure of PDB 8c6j Chain A Binding Site BS04

Receptor Information
>8c6j Chain A (length=2261) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MSEEKLQEKARKWQQLQAKRYAEKRKFGFVDAQKEDMPPEHVRKIIRDHG
DMTNRKFRHDKRVYLGALKYMPHAVLKLLENMPMPWEQIRDVPVLYHITG
AISFVNEIPWVIEPVYISQWGSMWIMMRREKRDRRHFKRMRFPPFDDEEP
PLDYADNILDVEPLEAIQLELDPEEDAPVLDWFYDHQPLRDSRKYVNGST
YQRWQFTLPMMSTLYRLANQLLTDLVDDNYFYLFDLKAFFTSKALNMAIP
GGPKFEPLVRDINLQDEDWNEFNDINKIIIRQPIRTEYKIAFPYLYNNLP
HHVHLTWYHTPNVVFIKTEDPDLPAFYFDPLINPISHRHSVKSQEPLPDD
DEEFELPEFVEPFLKDTPLYTDNTANGIALLWAPRPFNLRSGRTRRALDI
PLVKNWYREHCPAGQPVKVRVSYQKLLKYYVLNALKHRPPKAQKKRYLFR
SFKATKFFQSTKLDWVEVGLQVCRQGYNMLNLLIHRKNLNYLHLDYNFNL
KPVKTLTTKERKKSRFGNAFHLCREVLRLTKLVVDSHVQYRLGNVDAFQL
ADGLQYIFAHVGQLTGMYRYKYKLMRQIRMCKDLKHLIYYRFNTGPVGKG
PGCGFWAAGWRVWLFFMRGITPLLERWLGNLLARQFEGRHSKGVAKTVTK
QRVESHFDLELRAAVMHDILDMMPEGIKQNKARTILQHLSEAWRCWKANI
PWKVPGLPTPIENMILRYVKAKADWWTNTAHYNRERIRRGATVDKTVCKK
NLGRLTRLYLKAEQERQHNYLKDGPYITAEEAVAVYTTTVHWLESRRFSP
IPFPPLSYKHDTKLLILALERLKEAYSVKSRLNQSQREELGLIEQAYDNP
HEALSRIKRHLLTQRAFKEVGIEFMDLYSHLVPVYDVEPLEKITDAYLDQ
YLWYEADKRRLFPPWIKPADTEPPPLLVYKWCQGINNLQDVWETSEGECN
VMLESRFEKMYEKIDLTLLNRLLRLIVDHNIADYMTAKNNVVINYKDMNH
TNSYGIIRGLQFASFIVQYYGLVMDLLVLGLHRASEMAGPPQMPNDFLSF
QDIATEAAHPIRLFCRYIDRIHIFFRFTADEARDLIQRYLTEHPDPNNEN
IVGYNNKKCWPRDARMRLMKHDVNLGRAVFWDIKNRLPRSVTTVQWENSF
VSVYSKDNPNLLFNMCGFECRILPKCRTSYEEFTHKDGVWNLQNEVTKER
TAQCFLRVDDESMQRFHNRVRQILMASGSTTFTKIVNKWNTALIGLMTYF
REAVVNTQELLDLLVKCENKIQTRIKIGLNSKMPSRFPPVVFYTPKELGG
LGMLSMGHVLIPQSDLRWSKQTDVGITHFRSGMSHEEDQLIPNLYRYIQP
WESEFIDSQRVWAEYALKRQEAIAQNRRLTLEDLEDSWDRGIPRINTLFQ
KDRHTLAYDKGWRVRTDFKQYQVLKQNPFWWTHQRHDGKLWNLNNYRTDM
IQALGGVEGILEHTLFKGTYFPTWEGLFWEKASGFEESMKWKKLTNAQRS
GLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISLI
QIFRAHLWQKIHESIVMDLCQVFDQELDALEIETVQKETIHPRKSYKMNS
SCADILLFASYKWNVSRPSLLADSKDVMDSTTTQKYWIDIQLRWGDYDSH
DIERYARAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHSAYGNWFPGSKP
LIQQAMAKIMKANPALYVLRERIRKGLQLYSSEPTEPYLSSQNYGELFSN
QIIWFVDDTNVYRVTIHKTFEGNLTTKPINGAIFIFNPRTGQLFLKIIHT
SVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEV
HLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLYDDWL
KTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTLTDE
EWIKVEVQLKDLILADYGKKNNVNVASLTQSEIRDIILGMEISAPKTEWR
VRAISAANLHLRTNHIYVSSDDIKETGYTYILPKNVLKKFICISDLRAQI
AGYLYGVSPPDNPQVKEIRCIVMVPQWGTHQTVHLPGQLPQHEYLKEMEP
LGWIHTQPNESPQLSPQDVTTHAKIMADNPSWDGEKTIIITCSFTPGSCT
LTAYKLTPSGYEWGRQNTDKGNNPKGYLPSHYERVQMLLSDRFLGFFMVP
AQSSWNYNFMGVRHDPNMKYELQLANPKEFYHEVHRPSHFLNFALLQEGE
VYSADREDLYA
Ligand information
>8c6j Chain E (length=24) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gcugccgacgagaccgccgccaag
........................
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8c6j Regulation of 3' splice site selection after step 1 of splicing by spliceosomal C* proteins.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		K278 V441 Q448 R539 Y592 R593 Y596 R603 S1305 K1306 M1307 P1308 H1352 S1358 Y1548 G1564 K1565
Binding residue
(residue number reindexed from 1)		K254 V417 Q424 R515 Y568 R569 Y572 R579 S1281 K1282 M1283 P1284 H1328 S1334 Y1524 G1540 K1541
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008237 metallopeptidase activity
GO:0017070 U6 snRNA binding
GO:0030619 U1 snRNA binding
GO:0030620 U2 snRNA binding
GO:0030623 U5 snRNA binding
GO:0070530 K63-linked polyubiquitin modification-dependent protein binding
GO:0097157 pre-mRNA intronic binding
GO:0140492 metal-dependent deubiquitinase activity
Biological Process
GO:0000244 spliceosomal tri-snRNP complex assembly
GO:0000375 RNA splicing, via transesterification reactions
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0071222 cellular response to lipopolysaccharide
GO:0071356 cellular response to tumor necrosis factor
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005681 spliceosomal complex
GO:0005682 U5 snRNP
GO:0016020 membrane
GO:0016607 nuclear speck
GO:0030532 small nuclear ribonucleoprotein complex
GO:0046540 U4/U6 x U5 tri-snRNP complex
GO:0071005 U2-type precatalytic spliceosome
GO:0071006 U2-type catalytic step 1 spliceosome
GO:0071007 U2-type catalytic step 2 spliceosome
GO:0071013 catalytic step 2 spliceosome

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8c6j, PDBe:8c6j, PDBj:8c6j
PDBsum8c6j
PubMed36867703
UniProtQ6P2Q9|PRP8_HUMAN Pre-mRNA-processing-splicing factor 8 (Gene Name=PRPF8)

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