Structure of PDB 8c07 Chain B Binding Site BS01

Receptor Information
>8c07 Chain B (length=450) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TGQNHPFFRRSDSMTFLGCIPPNPFEVPLAEAIPLADQPHLLQPNARKED
LFGRPSQGLYLGGFEVKESKFRREMEKLRNQQSRDLSLEVDRDRDLLIQQ
TMRQLNNHFGPMAVHRVKVTFKDEPGEGSGVARSFYTAIAQAFLSNEKLP
NLNAPLFYQPGKRGFYTPRPGKNTEARLNCFRNIGRILGLCLLQNELCPI
TLNRHVIKVLLGRKVNWHDFAFFDPVMYESLRQLILASQSSDADAVFSAM
DLAFAIDLCKEEGGGQVELIPNGVNIPVTPQNVYEYVRKYAEHRMLVVAE
QPLHAMRKGLLDVLPKNSLEDLTAEDFRLLVNGCGEVNVQMLISFTSFND
ESGENAEKLLQFKRWFWSIVEKMSMTERQDLVYFWTSSPSLPASEEGFQP
MPSITIRPPDDQHLPTANTCISRLYVPLYSSKQILKQKLLLAIKTKNFGF
Ligand information
Ligand IDSY8
InChIInChI=1S/C5H11NO/c1-5(7)3-2-4-6/h2-4,6H2,1H3
InChIKeyVTHKLCWOLNQWHB-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.385
OpenEye OEToolkits 2.0.7		CC(=O)CCCN
FormulaC5 H11 N O
Name5-azanylpentan-2-one
ChEMBL
DrugBank
ZINCZINC000034101527
PDB chain8c07 Chain K Residue 101 [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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PDB8c07 Structural snapshots along K48-linked ubiquitin chain formation by the HECT E3 UBR5.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		N2766 C2768
Binding residue
(residue number reindexed from 1)		N418 C420
Annotation score1
Enzymatic activity
Enzyme Commision number 2.3.2.26: HECT-type E3 ubiquitin transferase.
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0034450 ubiquitin-ubiquitin ligase activity
GO:0043130 ubiquitin binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
Biological Process
GO:0000209 protein polyubiquitination
GO:0006281 DNA repair
GO:0006974 DNA damage response
GO:0010628 positive regulation of gene expression
GO:0016567 protein ubiquitination
GO:0033696 heterochromatin boundary formation
GO:0035519 protein K29-linked ubiquitination
GO:0042307 positive regulation of protein import into nucleus
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045879 negative regulation of smoothened signaling pathway
GO:0050847 progesterone receptor signaling pathway
GO:0070936 protein K48-linked ubiquitination
GO:0070979 protein K11-linked ubiquitination
GO:0071629 cytoplasm protein quality control by the ubiquitin-proteasome system
GO:0071630 nuclear protein quality control by the ubiquitin-proteasome system
GO:0090263 positive regulation of canonical Wnt signaling pathway
GO:0140455 cytoplasm protein quality control
GO:0140861 DNA repair-dependent chromatin remodeling
GO:0141198 protein branched polyubiquitination
Cellular Component
GO:0000785 chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane
GO:0032991 protein-containing complex
GO:0048471 perinuclear region of cytoplasm

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8c07, PDBe:8c07, PDBj:8c07
PDBsum8c07
PubMed37620400
UniProtO95071|UBR5_HUMAN E3 ubiquitin-protein ligase UBR5 (Gene Name=UBR5)

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