Structure of PDB 8q7n Chain A Binding Site BS03

Receptor Information
>8q7n Chain A (length=2234) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KEDMPPEHVRKIIRDHGDMTNRKFRHDKRVYLGALKYMPHAVLKLLENMP
MPWEQIRDVPVLYHITGAISFVNEIPWVIEPVYISQWGSMWIMMRREKRD
RRHFKRMRFPPFDDEEPPLDYADNILDVEPLEAIQLELDPEEDAPVLDWF
YDHQPLRDSRKYVNGSTYQRWQFTLPMMSTLYRLANQLLTDLVDDNYFYL
FDLKAFFTSKALNMAIPGGPKFEPLVRDINLQDEDWNEFNDINKIIIRQP
IRTEYKIAFPYLYNNLPHHVHLTWYHTPNVVFIKTEDPDLPAFYFDPLIN
PISHRHSVKSQEPLPDDDEEFELPEFVEPFLKDTPLYTDNTANGIALLWA
PRPFNLRSGRTRRALDIPLVKNWYREHCPAGQPVKVRVSYQKLLKYYVLN
ALKHRPPKAQKKRYLFRSFKATKFFQSTKLDWVEVGLQVCRQGYNMLNLL
IHRKNLNYLHLDYNFNLKPVKTLTTKERKKSRFGNAFHLCREVLRLTKLV
VDSHVQYRLGNVDAFQLADGLQYIFAHVGQLTGMYRYKYKLMRQIRMCKD
LKHLIYYRFNTGPVGKGPGCGFWAAGWRVWLFFMRGITPLLERWLGNLLA
RQFEGRHSHFDLELRAAVMHDILDMMPEGIKQNKARTILQHLSEAWRCWK
ANIPWKVPGLPTPIENMILRYVKAKADWWTNTAHYNRERIRRGATVDKTV
CKKNLGRLTRLYLKAEQERQHNYLKDGPYITAEEAVAVYTTTVHWLESRR
FSPIPFPPLSYKHDTKLLILALERLKEAYSVKSRLNQSQREELGLIEQAY
DNPHEALSRIKRHLLTQRAFKEVGIEFMDLYSHLVPVYDVEPLEKITDAY
LDQYLWYEADKRRLFPPWIKPADTEPPPLLVYKWCQGINNLQDVWETSEG
ECNVMLESRFEKMYEKIDLTLLNRLLRLIVDHNIADYMTAKNNVVINYKD
MNHTNSYGIIRGLQFASFIVQYYGLVMDLLVLGLHRASEMAGPPQMPNDF
LSFQDIATEAAHPIRLFCRYIDRIHIFFRFTADEARDLIQRYLTEHPDPN
NENIVGYNNKKCWPRDARMRLMKHDVNLGRAVFWDIKNRLPRSVTTVQWE
NSFVSVYSKDNPNLLFNMCGFECRILPKCRTSYEEFTHKDGVWNLQNEVT
KERTAQCFLRVDDESMQRFHNRVRQILMASGSTTFTKIVNKWNTALIGLM
TYFREAVVNTQELLDLLVKCENKIQTRIKIGLNSKMPSRFPPVVFYTPKE
LGGLGMLSMGHVLIPQSDLRWSKQTDVGITHFRSGMSHEEDQLIPNLYRY
IQPWESEFIDSQRVWAEYALKRQEAIAQNRRLTLEDLEDSWDRGIPRINT
LFQKDRHTLAYDKGWRVRTDFKQYQVLKQNPFWWTHQRHDGKLWNLNNYR
TDMIQALGGVEGILEHTLFKGTYFPTWEGLFWEKASGFEESMKWKKLTNA
QRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKI
SLIQIFRAHLWQKIHESIVMDLCQVFDQELDALEIETVQKETIHPRKSYK
MNSSCADILLFASYKWNVSRPSLLADSKDVMDSTTTQKYWIDIQLRWGDY
DSHDIERYARAKFLDYTTDNMSIYPSPTGVLIAIDLAYNLHSAYGNWFPG
SKPLIQQAMAKIMKANPALYVLRERIRKGLQLYSSEPTEPYLSSQNYGEL
FSNQIIWFVDDTNVYRVTIHKTFEGNLTTKPINGAIFIFNPRTGQLFLKI
IHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDP
LEVHLLDFPNIVIKGSELQLPFQACLKVEKFGDLILKATEPQMVLFNLYD
DWLKTISSYTAFSRLILILRALHVNNDRAKVILKPDKTTITEPHHIWPTL
TDEEWIKVEVQLKDLILADYGKKNNVNVASLTQSEIRDIILGMEISAPSQ
QRQQIQLTATQTRTVNKHGDEIITSTTSNYETQTFSSKTEWRVRAISAAN
LHLRTNHIYVSSDDIKETGYTYILPKNVLKKFICISDLRAQIAGYLYGVS
PPDNPQVKEIRCIVMVPQWGTHQTVHLPGQLPQHEYLKEMEPLGWIHTQP
NESPQLSPQDVTTHAKIMADNPSWDGEKTIIITCSFTPGSCTLTAYKLTP
SGYEWGRQNTDKGNNPKGYLPSHYERVQMLLSDRFLGFFMVPAQSSWNYN
FMGVRHDPNMKYELQLANPKEFYHEVHRPSHFLN
Ligand information
>8q7n Chain Z (length=31) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ccuccgaacgguaagagccuagcauguagaa
...............................
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8q7n New insights into the functions of B complex proteins revealed by cryo-EM of dimerized spliceosomes
Resolution3.1 Å
Binding residue
(original residue number in PDB)		R79 R82 V441 N512 N514 T532 K533 K536 R539 R593 Y596 M599 R603 K606 S1305 K1306 G1550 F1551 G1564 K1565
Binding residue
(residue number reindexed from 1)		R22 R25 V384 N455 N457 T475 K476 K479 R482 R536 Y539 M542 R546 K549 S1234 K1235 G1479 F1480 G1493 K1494
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
View graph for
Cellular Component
External links
PDB RCSB:8q7n, PDBe:8q7n, PDBj:8q7n
PDBsum8q7n
PubMed38383864
UniProtQ6P2Q9|PRP8_HUMAN Pre-mRNA-processing-splicing factor 8 (Gene Name=PRPF8)

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