Structure of PDB 9fmd Chain h Binding Site BS01

Receptor Information
>9fmd Chain h (length=83) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SIGVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYR
DGRVAQLEQVYIRGSKIRFLILPDMLKNAPMLK
Ligand information
>9fmd Chain 2 (length=120) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aucgcuucucggccuuuuggcuaagaucaaguguaguaucuguucuuauc
aguuuaauauauauuaaaagauuuuuggaacugcaucgaccugguauugc
aguaccuccaggaacggugc
..................................................
...<<<<<<..>>>>>>...............<<<<<<.<<<<<......
.......>>>>>..>>>>>>
Receptor-Ligand Complex Structure
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PDB9fmd Mechanism for the initiation of spliceosome disassembly.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		R29 N38 N40 T47 R51 D52 G53 R54 Q57 R64 S66
Binding residue
(residue number reindexed from 1)		R28 N37 N39 T46 R50 D51 G52 R53 Q56 R63 S65
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0019899 enzyme binding
GO:0070034 telomerase RNA binding
GO:0071208 histone pre-mRNA DCP binding
GO:0071209 U7 snRNA binding
GO:1990446 U1 snRNP binding
Biological Process
GO:0000387 spliceosomal snRNP assembly
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0006479 protein methylation
GO:0008380 RNA splicing
GO:0036261 7-methylguanosine cap hypermethylation
GO:1903241 U2-type prespliceosome assembly
Cellular Component
GO:0000243 commitment complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005681 spliceosomal complex
GO:0005682 U5 snRNP
GO:0005683 U7 snRNP
GO:0005684 U2-type spliceosomal complex
GO:0005685 U1 snRNP
GO:0005686 U2 snRNP
GO:0005687 U4 snRNP
GO:0005689 U12-type spliceosomal complex
GO:0005697 telomerase holoenzyme complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016604 nuclear body
GO:0030532 small nuclear ribonucleoprotein complex
GO:0034709 methylosome
GO:0034715 pICln-Sm protein complex
GO:0034719 SMN-Sm protein complex
GO:0046540 U4/U6 x U5 tri-snRNP complex
GO:0071005 U2-type precatalytic spliceosome
GO:0071007 U2-type catalytic step 2 spliceosome
GO:0071011 precatalytic spliceosome
GO:0071013 catalytic step 2 spliceosome
GO:0097526 spliceosomal tri-snRNP complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:9fmd, PDBe:9fmd, PDBj:9fmd
PDBsum9fmd
PubMed38925148
UniProtP62318|SMD3_HUMAN Small nuclear ribonucleoprotein Sm D3 (Gene Name=SNRPD3)

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