7SLZ

CRYSTAL STRUCTURE OF GID4 IN COMPLEX WITH BPF023596


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.208 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

CRYSTAL STRUCTURE OF GID4 IN COMPLEX WITH BPF023596

Song, X.Dong, A.Calabrese, M.Wang, F.Owen, D.Arrowsmith, C.H.Edwards, A.M.Min, J.Structural Genomics Consortium (SGC)

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glucose-induced degradation protein 4 homolog167Homo sapiensMutation(s): 0 
Gene Names: GID4C17orf39VID24
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IVV7 (Homo sapiens)
Explore Q8IVV7 
Go to UniProtKB:  Q8IVV7
PHAROS:  Q8IVV7
GTEx:  ENSG00000141034 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IVV7
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
9QU (Subject of Investigation/LOI)
Query on 9QU

Download Ideal Coordinates CCD File 
B [auth A]N-[(1s,4s)-4-(1H-benzimidazol-2-yl)cyclohexyl]-N~2~-[(1H-indol-2-yl)methyl]glycinamide
C24 H27 N5 O
HLHNFJNSQZZUNW-MAEOIBBWSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
9QU BindingDB:  7SLZ Kd: 80 (nM) from 1 assay(s)
IC50: 4100 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.264α = 90
b = 40.264β = 90
c = 202.958γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHASERphasing
BUSTERrefinement
PDB_EXTRACTdata extraction
HKL-3000data reduction

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other privateCanada--

Revision History  (Full details and data files)

  • Version 1.0: 2022-01-19
    Type: Initial release
  • Version 1.1: 2022-03-16
    Changes: Database references, Structure summary
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description