2H8M | pdb_00002h8m

N-Domain Of Grp94 In Complex With the 2-Iodo-NECA

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 
    0.241 (Depositor), 0.237 (DCC) 
  • R-Value Work: 
    0.213 (Depositor), 0.208 (DCC) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.4 of the entry. See complete history. 

Literature

N-Domain Of Grp94 In Complex With the 2-Iodo-NECA

Immormino, R.M., Gewirth, D.T.

To be published.

Macromolecule Content 

  • Total Structure Weight: 56.12 kDa 
  • Atom Count: 3,959 
  • Modeled Residue Count: 425 
  • Deposited Residue Count: 472 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Endoplasmin
A, B
236Canis lupus familiarisMutation(s): 0 
Gene Names: HSP90B1, TRA1
EC: 3.6.4
UniProt
Find proteins for P41148 (Canis lupus familiaris)
Explore P41148 
Go to UniProtKB:  P41148
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP41148
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NEI

Query on NEI


Download:Ideal Coordinates CCD File
C [auth A],
I [auth B]		(2S,3S,4R,5R)-5-(6-AMINO-2-IODO-9H-PURIN-9-YL)-N-ETHYL-3,4-DIHYDROXYTETRAHYDROFURAN-2-CARBOXAMIDE
C12 H15 I N6 O4
YEBHQRSEUJCFMN-QMWPFBOUSA-N
1PE

Query on 1PE


Download:Ideal Coordinates CCD File
N [auth B],
O [auth B]		PENTAETHYLENE GLYCOL
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
PG4

Query on PG4


Download:Ideal Coordinates CCD File
D [auth A]
E [auth A]
F [auth A]
G [auth A]
H [auth A]
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
J [auth B],
K [auth B],
L [auth B],
M [auth B]
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free:  0.241 (Depositor), 0.237 (DCC) 
  • R-Value Work:  0.213 (Depositor), 0.208 (DCC) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.32α = 90
b = 84.5β = 90
c = 96.08γ = 90
Software Package:
Software NamePurpose
CNSrefinement
HKL-2000data reduction
XDSdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-04-24
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-08-02
    Changes: Advisory, Source and taxonomy
  • Version 1.4: 2023-08-30
    Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description