Structure of PDB 7onb Chain C Binding Site BS03

Receptor Information
>7onb Chain C (length=816) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SPEEQKERKIMKLLLKIKNGTPMRKAALRQITDKAREFGAGPLFNQILPL
LMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYY
ARVEGREIISNLAKAAGLATMISTMRPDIDNMDEYVRNTTARAFAVVASA
LGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLRSLVE
IIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQH
RGKGLAAFLKAIGYLIPLMDAEYANYYTREVMLILIREFQSPDEEMKKIV
LKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTV
ELANKVGAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKL
EEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKRVKPYLPQICGTVLW
RLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPE
VLGSILGALKAIVNVIGMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDL
VGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYIAKAI
GPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRV
PELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTPLLEDALMDRDLVHRQTA
SAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLR
VAIGPCRMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPRIY
NDDKNTYIRYELDYIL
Ligand information
Ligand IDSJT
InChIInChI=1S/C28H45NO8/c1-17(10-13-24-26(32)27(6,33)16-28(7,34-8)37-24)9-12-23-18(2)15-22(20(4)36-23)29-25(31)14-11-19(3)35-21(5)30/h9-11,13-14,18-20,22-24,26,32-33H,12,15-16H2,1-8H3,(H,29,31)/b13-10+,14-11-,17-9+/t18-,19-,20+,22+,23-,24+,26+,27-,28-/m0/s1
InChIKeyKFBJURVXOOMXKK-GSHHMAPISA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7C[C@H]1C[C@H]([C@H](O[C@H]1C/C=C(\C)/C=C/[C@@H]2[C@H]([C@@](C[C@@](O2)(C)OC)(C)O)O)C)NC(=O)/C=C\[C@H](C)OC(=O)C
OpenEye OEToolkits 2.0.7CC1CC(C(OC1CC=C(C)C=CC2C(C(CC(O2)(C)OC)(C)O)O)C)NC(=O)C=CC(C)OC(=O)C
CACTVS 3.385CO[C]1(C)C[C](C)(O)[CH](O)[CH](O1)C=CC(C)=CC[CH]2O[CH](C)[CH](C[CH]2C)NC(=O)C=C[CH](C)OC(C)=O
CACTVS 3.385CO[C@]1(C)C[C@](C)(O)[C@H](O)[C@H](O1)/C=C/C(C)=C/C[C@@H]2O[C@H](C)[C@@H](C[C@@H]2C)NC(=O)\C=C/[C@H](C)OC(C)=O
FormulaC28 H45 N O8
Namespliceostatin A (form II);
[(~{Z},2~{S})-5-[[(2~{R},3~{R},5~{S},6~{S})-6-[(2~{E},4~{E})-5-[(2~{R},3~{R},4~{S},6~{S})-6-methoxy-4,6-dimethyl-3,4-bis(oxidanyl)oxan-2-yl]-3-methyl-penta-2,4-dienyl]-2,5-dimethyl-oxan-3-yl]amino]-5-oxidanylidene-pent-3-en-2-yl] ethanoate
ChEMBL
DrugBank
ZINC
PDB chain7onb Chain D Residue 1401 [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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PDB7onb Structural basis of intron selection by U2 snRNP in the presence of covalent inhibitors.
Resolution3.1 Å
Binding residue
(original residue number in PDB)
L1066 K1067 R1074
Binding residue
(residue number reindexed from 1)
L578 K579 R586
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0005515 protein binding
GO:1990935 splicing factor binding
Biological Process
GO:0000245 spliceosomal complex assembly
GO:0000375 RNA splicing, via transesterification reactions
GO:0000398 mRNA splicing, via spliceosome
GO:0006338 chromatin remodeling
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0045943 positive regulation of transcription by RNA polymerase I
GO:0045944 positive regulation of transcription by RNA polymerase II
GO:0045945 positive regulation of transcription by RNA polymerase III
GO:1903241 U2-type prespliceosome assembly
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005681 spliceosomal complex
GO:0005684 U2-type spliceosomal complex
GO:0005686 U2 snRNP
GO:0005689 U12-type spliceosomal complex
GO:0005730 nucleolus
GO:0016607 nuclear speck
GO:0034693 U11/U12 snRNP
GO:0071004 U2-type prespliceosome
GO:0071005 U2-type precatalytic spliceosome
GO:0071013 catalytic step 2 spliceosome
GO:0110016 B-WICH complex

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Molecular Function

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Biological Process

View graph for
Cellular Component
External links
PDB RCSB:7onb, PDBe:7onb, PDBj:7onb
PDBsum7onb
PubMed34301950
UniProtO75533|SF3B1_HUMAN Splicing factor 3B subunit 1 (Gene Name=SF3B1)

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