Structure of PDB 7b9v Chain A Binding Site BS06

Receptor Information
>7b9v Chain A (length=2191) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NLYTPKAEMPPEHLRKIINTHSDMASKMYNTDKKAFLGALKYLPHAILKL
LENMPHPWEQAKEVKVLYHTSGAITFVNETPRVIEPVYTAQWSATWIAMR
REKRDRTHFKRMRFPPFDDDEPPLSYEQHIENIEPLDPINLPLDSQDDEY
VKDWLYDSRPLEEDSKKVNGTSYKKWSFDLPEMSNLYRLSTPLRDEVTDK
NYYYLFDKKSFFNGKALNNAIPGGPKFEPLYPREEEEDYNEFNSIDRVIF
RVPIRSEYKVAFPHLYNSRPRSVRIPWYNNPVSCIIQNDEEYDTPALFFD
PSLNPIPHFDFTLPEDFAPLLAEEEELILPNTKDAMSLYHSPFPFNRTKG
KMVRAQDVALAKKWFLQHPDEEYPVKVKVSYQKLLKNYVLNELHPTLPTN
HNKTKLLKSLKNTKYFQQTTIDWVEAGLQLCRQGHNMLNLLIHRKGLTYL
HLDYNFNLKPTKTLTTKERKKSRLGNSFHLMRELLKMMKLIVDTHVQFRL
GNVDAFQLADGIHYILNHIGQLTGIYRYKYKVMHQIRACKDLKHIIYYKF
NKNLGKGPGCGFWQPAWRVWLNFLRGTIPLLERYIGNLITRQFEGRSNEI
VKTTTKQRLDAYYDLELRNSVMDDILEMMPESIRQKKARTILQHLSEAWR
CWKANIPWDVPGMPAPIKKIIERYIKSKADAWVSAAHYNRERIKRGAHVE
KTMVKKNLGRLTRLWIKNEQERQRQIQKNGPEITPEEATTIFSVMVEWLE
SRSFSPIPFPPLTYKNDTKILVLALEDLKDVYASKVRLNASEREELALIE
EAYDNPHDTLNRIKKYLLTQRVFKPVDITMMENYQNISPVYSVDPLEKIT
DAYLDQYLWYEADQRKLFPNWIKPSDSEIPPLLVYKWTQGINNLSEIWDV
SRGQSAVLLETTLGEMAEKIDFTLLNRLLRLIVDPNIADYITAKNNVVIN
FKDMSHVNKYGLIRGLKFASFIFQYYGLVIDLLLLGQERATDLAGPANNP
NEFMQFKSKEVEKAHPIRLYTRYLDRIYMLFHFEEDEGEELTDEYLAENP
DPNFENSIGYNNRKCWPKDSRMRLIRQDVNLGRAVFWEIQSRVPTSLTSI
KWENAFVSVYSKNNPNLLFSMCGFEVRILPRQRMEEVVSNDEGVWDLVDE
RTKQRTAKAYLKVSEEEIKKFDSRIRGILMASGSTTFTKVAAKWNTSLIS
LFTYFREAIVATEPLLDILVKGETRIQNRVKLGLNSKMPTRFPPAVFYTP
KELGGLGMISASHILIPASDLSWSKQTDTGITHFRAGMTHEDEKLIPTIF
RYITTWENEFLDSQRVWAEYATKRQEAIQQNRRLAFEELEGSWDRGIPRI
STLFQRDRHTLAYDRGHRIRREFKQYSLERNSPFWWTNSHHDGKLWNLNA
YRTDVIQALGGIETILEHTLFKGTGFNSWEGLFWEKASGFEDSMQFKKLT
HAQRTGLSQIPNRRFTLWWSPTINRANVYVGFLVQLDLTGIFLHGKIPTL
KISLIQIFRAHLWQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKS
YKMNSSAADITMESVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYG
DYDSHDISRYVRAKFLDYTTDNVSMYPSPTGVMIGIDLAYNMYDAYGNWF
NGLKPLIQNSMRTIMKANPALYVLRERIRKGLQIYQSSVQEPFLNSSNYA
ELFNNDIKLFVDDTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHLFL
KIIHTSVWAGQKRLSQLAKWKTAEEVSALVRSLPKEEQPKQIIVTRKAML
DPLEVHMLDFPNIAIRPTELRLPFSAAMSIDKLSDVVMKATEPQMVLFNI
YDDWLDRISSYTAFSRLTLLLRALKTNEESAKMILLSDPTITIKSYHLWP
SFTDEQWITIESQMRDLILTEYGRKYNVNISALTQTEIKDIILGQNEWRK
SAIANTLLYLRLKNIYVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQVA
AFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLE
LLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTPGSVSLSA
YNLTDEGYQWGEENKDIMNVLSEGFEPTFSTHAQLLLSDRITGNFIIPSG
NVWNYTFMGTAFNQEGDYNFKYGIPLEFYNEMHRPVHFLQF
Ligand information
Ligand IDKGN
InChIInChI=1S/C6H18O24P6/c7-31(8,9)25-1-2(26-32(10,11)12)4(28-34(16,17)18)6(30-36(22,23)24)5(29-35(19,20)21)3(1)27-33(13,14)15/h1-6H,(H2,7,8,9)(H2,10,11,12)(H2,13,14,15)(H2,16,17,18)(H2,19,20,21)(H2,22,23,24)/t1-,2-,3-,4-,5+,6+/m0/s1
InChIKeyIMQLKJBTEOYOSI-LKPKBOIGSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.6C1(C(C(C(C(C1OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O)OP(=O)(O)O
CACTVS 3.385O[P](O)(=O)O[CH]1[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH]1O[P](O)(O)=O
CACTVS 3.385O[P](O)(=O)O[C@H]1[C@@H](O[P](O)(O)=O)[C@H](O[P](O)(O)=O)[C@H](O[P](O)(O)=O)[C@@H](O[P](O)(O)=O)[C@@H]1O[P](O)(O)=O
FormulaC6 H18 O24 P6
NameD-chiro inositol hexakisphosphate
ChEMBL
DrugBank
ZINC
PDB chain7b9v Chain A Residue 2500 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7b9v Structural basis for conformational equilibrium of the catalytic spliceosome.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		R236 K517 H659 K684 H685 Y688 Y689 K697
Binding residue
(residue number reindexed from 1)		R111 K376 H518 K543 H544 Y547 Y548 K556
Annotation score1
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7b9v, PDBe:7b9v, PDBj:7b9v
PDBsum7b9v
PubMed33705709
UniProtP33334|PRP8_YEAST Pre-mRNA-splicing factor 8 (Gene Name=PRP8)

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