2Q87 | pdb_00002q87

The Crystal Structure of the Human IRp60 Ectodomain

• PDB DOI: https://doi.org/10.2210/pdb2Q87/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-06-09 Released: 2007-07-03 
• Deposition Author(s): Dimasi, N., Marquez, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.274 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Starting Model: experimental

Literature

The Crystal Structure of IRp60 Ectodomain

Dimasi, N., Marquez, J.A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 36.6 kDa 
• Atom Count: 2,729 
• Modeled Residue Count: 320 
• Deposited Residue Count: 330 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CMRF35-H antigen	A, B, C	110	Homo sapiens	Mutation(s): 1  Gene Names: CD300A, CMRF35H
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UGN4 (Homo sapiens) Explore Q9UGN4  Go to UniProtKB:  Q9UGN4
PHAROS:  Q9UGN4 GTEx:  ENSG00000167851

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.274 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.49	α = 90
b = 61.24	β = 90
c = 106.19	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-07-03 
Deposition Author(s): Dimasi, N., Marquez, J.A.

Revision History  

• Version 1.0: 2007-07-03
  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: 2012-07-25
  Changes: Other
• Version 1.4: 2017-10-18
  Changes: Refinement description
• Version 1.5: 2021-10-20
  Changes: Database references
• Version 1.6: 2023-08-30
  Changes: Data collection, Refinement description
• Version 1.7: 2024-10-30
  Changes: Structure summary