6DO2

Crystal structure of human GRP78 in complex with 7-deaza-2'-C-methyladenosine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Crystal structure of human GRP78 in complex with 7-deaza-2'-C-methyladenosine

Ferrie, R.P.Chen, Y.Antoshchenko, T.Cooney, O.M.Huang, Y.Park, H.W.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Endoplasmic reticulum chaperone BiP
A, B
382Homo sapiensMutation(s): 0 
Gene Names: HSPA5GRP78
EC: 3.6.4.10
UniProt & NIH Common Fund Data Resources
Find proteins for P11021 (Homo sapiens)
Go to UniProtKB:  P11021
PHAROS:  P11021
GTEx:  ENSG00000044574 
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
H5V (Subject of Investigation/LOI)
Query on H5V

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
7-(2-C-methyl-beta-D-ribofuranosyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine
C12 H16 N4 O4
IRZRJANZDIOOIF-GAJNKVMBSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.70 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.41α = 90
b = 75.02β = 99.11
c = 89.48γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BUSTERrefinement
XDSdata reduction
BUSTERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-06-12
    Type: Initial release
  • Version 1.1: 2024-03-13
    Changes: Data collection, Database references