3BPU | pdb_00003bpu

Crystal structure of the 3rd PDZ domain of human membrane associated guanylate kinase, C677S and C709S double mutant

• PDB DOI: https://doi.org/10.2210/pdb3BPU/pdb

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


• Deposited: 2007-12-19 Released: 2008-01-08 
• Deposition Author(s): Pilka, E.S., Hozjan, V., Cooper, C., Pike, A.C.W., Elkins, J., Doyle, D.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Oppermann, U., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.251 (Depositor), 0.255 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.211 (DCC) 
• R-Value Observed: 
  0.204 (Depositor) 

Starting Models: experimental

Literature

Crystal structure of the 3rd PDZ domain of human membrane associated guanylate kinase, C677S and C709S double mutant.

Pilka, E.S., Hozjan, V., Cooper, C., Pike, A.C.W., Elkins, J., Doyle, D.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Oppermann, U.

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)

Macromolecule Content 

• Total Structure Weight: 9.68 kDa 
• Atom Count: 712 
• Modeled Residue Count: 86 
• Deposited Residue Count: 88 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 1	A	88	Homo sapiens	Mutation(s): 2  Gene Names: MAGI1, BAIAP1, BAP1, TNRC19
UniProt & NIH Common Fund Data Resources
Find proteins for Q96QZ7 (Homo sapiens) Explore Q96QZ7  Go to UniProtKB:  Q96QZ7
PHAROS:  Q96QZ7 GTEx:  ENSG00000151276

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.251 (Depositor), 0.255 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.211 (DCC) 
• R-Value Observed: 0.204 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.472	α = 90
b = 61.578	β = 90
c = 80.113	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-01-08 
Deposition Author(s): Pilka, E.S., Hozjan, V., Cooper, C., Pike, A.C.W., Elkins, J., Doyle, D.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Weigelt, J., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2008-01-08
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.4: 2023-08-30
  Changes: Data collection, Refinement description