Structure of PDB 9fmd Chain L

Receptor sequence
>9fmdL (length=555) Species: 9606 (Homo sapiens) [Search protein sequence]
MIKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWL
DPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLL
DKAAQPNPETKPARPDPIDMDEDELEMLSEARARLANTQGKKAKRKAREK
QLEEARRLAALQKRRELRAAGIEIQKKRKRKRGVDYNAEIPFEKKPALGF
YDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESD
LPSAILQTSRILQEAQNLMALTVDARKQAIRDAERVKEMKRMHKAVQKDL
PRPSEVNETILRPLNVEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPS
GNKKGKTVGFGTNNSEHITYLEHNPYEKFSKEELKKAQDVLVQEMEVVKQ
GMSHGELSSEAYNQVWEECYSQVLYLPGQSRYTRANLAKKDRIESLEKRL
EINRGHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAH
LELRTFEELKKHEDSAIPRRLECLKEDVQRQQEREKELQHRYADLLLEKE
TLKSK
3D structure
PDB9fmd Mechanism for the initiation of spliceosome disassembly.
ChainL
Resolution3.3 Å
3D
structure
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Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 rna L N29 S32 H266 Q281 N25 S28 H242 Q257
BS02 rna L K25 Y26 Q30 R33 S36 R158 N161 T162 G164 K165 K166 A167 R169 K170 K203 V208 F216 L251 R252 S253 K21 Y22 Q26 R29 S32 R134 N137 T138 G140 K141 K142 A143 R145 K146 K179 V184 F192 L227 R228 S229
BS03 rna L E150 R202 E126 R178
Gene Ontology
Molecular Function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific
GO:0003677 DNA binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0042802 identical protein binding
GO:0071987 WD40-repeat domain binding
Biological Process
GO:0000077 DNA damage checkpoint signaling
GO:0000398 mRNA splicing, via spliceosome
GO:0006281 DNA repair
GO:0006357 regulation of transcription by RNA polymerase II
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0045944 positive regulation of transcription by RNA polymerase II
Cellular Component
GO:0000974 Prp19 complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005662 DNA replication factor A complex
GO:0005681 spliceosomal complex
GO:0005737 cytoplasm
GO:0016020 membrane
GO:0016607 nuclear speck
GO:0071007 U2-type catalytic step 2 spliceosome
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:9fmd, PDBe:9fmd, PDBj:9fmd
PDBsum9fmd
PubMed38925148
UniProtQ99459|CDC5L_HUMAN Cell division cycle 5-like protein (Gene Name=CDC5L)

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