3PVE | pdb_00003pve

Crystal structure of the G2 domain of Agrin from Mus Musculus

• PDB DOI: https://doi.org/10.2210/pdb3PVE/pdb

• Classification: TRANSCRIPTION
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-12-07 Released: 2011-01-19 
• Deposition Author(s): Sampathkumar, P., Do, J., Bain, K., Freeman, J., Gheyi, T., Atwell, S., Thompson, D.A., Emtage, J.S., Wasserman, S., Sauder, J.M., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.229 (Depositor), 0.231 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: other

Literature

Crystal structure of the G2 domain of Agrin from Mus Musculus

Sampathkumar, P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 40.99 kDa 
• Atom Count: 2,926 
• Modeled Residue Count: 347 
• Deposited Residue Count: 378 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Agrin, Agrin protein	A, B	189	Mus musculus	Mutation(s): 0  Gene Names: Agrin, Agrin (NP_067617)
UniProt
Find proteins for A2ASQ1 (Mus musculus) Explore A2ASQ1  Go to UniProtKB:  A2ASQ1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.229 (Depositor), 0.231 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.62	α = 72.28
b = 45.58	β = 68.53
c = 51.51	γ = 65.44

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
SCALA	data scaling
SHELX	phasing
SHELXD	phasing
SHELXE	model building
CRANK	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-19 
Deposition Author(s): Sampathkumar, P., Do, J., Bain, K., Freeman, J., Gheyi, T., Atwell, S., Thompson, D.A., Emtage, J.S., Wasserman, S., Sauder, J.M., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2011-01-19
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-08
  Changes: Refinement description
• Version 1.3: 2018-11-21
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-10
  Changes: Database references, Structure summary
• Version 1.5: 2024-02-21
  Changes: Data collection, Database references
• Version 1.6: 2024-04-03
  Changes: Refinement description