Structure of PDB 5gap Chain A Binding Site BS03

Receptor Information
>5gap Chain A (length=1349) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DAYYDLELRNSVMDDILEMMPESIRQKKARTILQHLSEAWRCWKANIPWD
VPGMPAPIKKIIERYIKSKADAWVSAAHYNRERIKRGAHVEKTMVKKNLG
RLTRLWIKNEQERQRQIQKNGPEITPEEATTIFSVMVEWLESRSFSPIPF
PPLTYKNDTKILVLALEDLKDVYASKVRLNASEREELALIEEAYDNPHDT
LNRIKKYLLTQRVFKPVDITMMENYQNISPVYSVDPLEKITDAYLDQYLW
YEADQRKLFPNWIKPSDSEIPPLLVYKWTQGINNLSEIWDVSRGQSAVLL
ETTLGEMAEKIDFTLLNRLLRLIVDPNIADYITAKNNVVINFKDMSHVNK
YGLIRGLKFASFIFQYYGLVIDLLLLGQERATDLAGPANNPNEFMQFKSK
EVEKAHPIRLYTRYLDRIYMLFHFEEDEGEELTDEYLAENPDPNFENSIG
YNNRKCWPKDSRMRLIRQDVNLGRAVFWEIQSRVPTSLTSIKWENAFVSV
YSKNNPNLLFSMCGFEVRILPRQRMEEVVSNDEGVWDLVDERTKQRTAKA
YLKVSEEEIKKFDSRIRGILMASGSTTFTKVAAKWNTSLISLFTYFREAI
VATEPLLDILVKGETRIQNRVKLGLNSKMPTRFPPAVFYTPKELGGLGMI
SASHILIPASDLSWSKQTDTGITHFRADEKLIPTIFRYITTWENEFLDSQ
RVWAEYATKRQEAIQQNRRLAFEELEGSWDRGIPRISTLFQRDRHTLAYD
RGHRIRREFKQYSLERNSPFWWTNSHHDGKLWNLNAYRTDVIQALGGIET
ILEHTLFKGTGFNSWEGLFWEKASGFEDSMQFKKLTHAQRTGLSQIPNRR
FTLWWSPTINRANVYVGFLVQLDLTGIFLHGKIPTLKISLIQIFRAHLWQ
KIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMNSSAADITMES
VHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISRYVRAK
FLDYTTDNVSMYPSPTGVMIGIDLAYNMYDAYGNWFNGLKPLIQNSMRTI
MKANPALYVLRERIRKGLQIYQSSVQEPFLNSSNYAELFNNDIKLFVDDT
NVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSVWAGQKRL
SQLAKWKTAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIA
IRPTELRLPFSAAMSIDKLSDVVMKATEPQMVLFNIYDDWLDRISSYTAF
SRLTLLLRALKTNEESAKMILLSDPTITIKSYHLWPSFTDEQWITIESQM
RDLILTEYGRKYNVNISALTQTEIKDIILGQNIKAPSVKRQKMAELEAA
Ligand information
>5gap Chain U (length=20) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uucuugccuuuuaccagaac
<<<<...........>>>>.
Receptor-Ligand Complex Structure
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PDB5gap Cryo-EM structure of the yeast U4/U6.U5 tri-snRNP at 3.7 angstrom resolution.
Resolution3.6 Å
Binding residue
(original residue number in PDB)		R1366 M1379
Binding residue
(residue number reindexed from 1)		R616 M629
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:5gap, PDBe:5gap, PDBj:5gap
PDBsum5gap
PubMed26829225
UniProtP33334|PRP8_YEAST Pre-mRNA-splicing factor 8 (Gene Name=PRP8)

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