Structure of PDB 5lj3 Chain A Binding Site BS05

Receptor Information
>5lj3 Chain A (length=1922) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YTPKAEMPPEHLRKIINTHSDMASKMYNTDKKAFLGALKYLPHAILKLLE
NMPHPWEQAKEVKVLYHTSGAITFVNETPRVIEPVYTAQWSATWIAMRRE
KRDRTHFKRMRFPPFDDDEPPLSYEQHIENIEPLDPINLPLDSQDDEYVK
DWLYDSRPLEEDSKKVNGTSYKKWSFDLPEMSNLYRLSTPLRDEVTDKNY
YYLFDKKSFFNGKALNNAIPGGPKFEPLYPREEEEDYNEFNSIDRVIFRV
PIRSEYKVAFPHLYNSRPRSVRIPWYNNPVSCIIQNDEEYDTPALFFDPS
LEDFAPLLAEEEELILPNTKDAMSLYHSPFPFNRTKGKMVRAQDVALAKK
WFLQHPDEEYPVKVKVSYQKLLKNYVLNELHPTLPTNHNKTKLLKSLKNT
KYFQQTTIDWVEAGLQLCRQGHNMLNLLIHRKGLTYLHLDYNFNLKPTKT
LTTKERKKSRLGNSFHLMRELLKMMKLIVDTHVQFRLGNVDAFQLADGIH
YILNHIGQLTGIYRYKYKVMHQIRACKDLKHIIYYKFNKNLGKGPGCGFW
QPAWRVWLNFLRGTIPLLERYIGNLITRQFEGRSNEIVKTTTKQRLDAYY
DLELRNSVMDDILEMMPESIRQKKARTILQHLSEAWRCWKANIPWDVPGM
PAPIKKIIERYIKSKADAWVSAAHYNRERIKRGAHVEKTMVKKNLGRLTR
LWIKNEQERQRQIQKNGPEITPEEATTIFSVMVEWLESRSFSPIPFPPLT
YKNDTKILVLALEDLKDVYASKVRLNASEREELALIEEAYDNPHDTLNRI
KKYLLTQRVFKPVDITMMENYQNISPVYSVDPLEKITDAYLDQYLWYEAD
QRKLFPNWIKPSDSEIPPLLVYKWTQGINNLSEIWDVSRGQSAVLLETTL
GEMAEKIDFTLLNRLLRLIVDPNIADYITAKNNVVINFKDMSHVNKYGLI
RGLKFASFIFQYYGLVIDLLLLGQERATDLAGPANNPNEFMQFKSKEVEK
AHPIRLYTRYLDRIYMLFHFEEDEGEELTDEYLAENPDPNFENSIGYNNR
KCWPKDSRMRLIRQDVNLGRAVFWEIQSRVPTSLTSIKWENAFVSVYSKN
NPNLLFSMCGFEVRILPRQRMEEVVSNDEGVWDLVDERTKQRTAKAYLKV
SEEEIKKFDSRIRGILMASGSTTFTKVAAKWNTSLISLFTYFREAIVATE
PLLDILVKGETRIQNRVKLGLNSKMPTRFPPAVFYTPKELGGLGMISASH
ILIPASDLSWSKQTDTGITHFRAGMTHEDEKLIPTIFRYITTWENEFLDS
QRVWAEYATKRQEAIQQNRRLAFEELEGSWDRGIPRISTLFQRDRHTLAY
DRGHRIRREFKQYSLERNSPFWWTNSHHDGKLWNLNAYRTDVIQALGGIE
TILEHTLFKGTGFNSWEGLFWEKASGFEDSMQFKKLTHAQRTGLSQIPNR
RFTLWWSPTINRANVYVGFLVQLDLTGIFLHGKIPTLKISLIQIFRAHLW
QKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMNSSAADITME
SVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISRYVRA
KFLDYTTDNVSMYPSPTGVMIGIDLAYNMYDAYGNWFNGLKPLIQNSMRT
IMKANPALYVLRERIRKGLQIYQSSNYAELFNNDIKLFVDDTNVYRVTVH
KTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSVWAGQKRLSQLAKWKT
AEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRL
PFSAAMSIDKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAFSRLTLLLR
ALKTNEESAKMILLSDPTITIKSYHLWPSFTDEQWITIESQMRDLILTEY
GRKYNVNISALTQTEIKDIILG
Ligand information
>5lj3 Chain V (length=97) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
guucgcgaagcuucguggacauuuggucaauuugaaacaauacagagaug
aucagcaguuccccugcauaaggaugaaccguuuuacaaagagauuu
<<<<<<<<<..>>>>>>>>>..............................
.......<<<..<<<.....>>>...>>>..................
Receptor-Ligand Complex Structure
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PDB5lj3 Cryo-EM structure of the spliceosome immediately after branching.
Resolution3.8 Å
Binding residue
(original residue number in PDB)		K152 M153 T156 K586 T606 K611 K612 R614 G616 S618 Y725 N728 R732 R737 I741 V742 K743 T746 Q748 R749 Y753
Binding residue
(residue number reindexed from 1)		K25 M26 T29 K432 T452 K457 K458 R460 G462 S464 Y571 N574 R578 R583 I587 V588 K589 T592 Q594 R595 Y599
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000386 second spliceosomal transesterification activity
GO:0003723 RNA binding
GO:0003729 mRNA 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:0097157 pre-mRNA intronic binding
Biological Process
GO:0000244 spliceosomal tri-snRNP complex assembly
GO:0000350 generation of catalytic spliceosome for second transesterification step
GO:0000387 spliceosomal snRNP assembly
GO:0000389 mRNA 3'-splice site recognition
GO:0000395 mRNA 5'-splice site recognition
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0008380 RNA splicing
Cellular Component
GO:0005634 nucleus
GO:0005681 spliceosomal complex
GO:0005682 U5 snRNP
GO:0005737 cytoplasm
GO:0046540 U4/U6 x U5 tri-snRNP complex
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:5lj3, PDBe:5lj3, PDBj:5lj3
PDBsum5lj3
PubMed27459055
UniProtP33334|PRP8_YEAST Pre-mRNA-splicing factor 8 (Gene Name=PRP8)

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