1C47 | pdb_00001c47

BINDING DRIVEN STRUCTURAL CHANGES IN CRYSTALINE PHOSPHOGLUCOMUTASE ASSOCIATED WITH CHEMICAL REACTION

• PDB DOI: https://doi.org/10.2210/pdb1C47/pdb

• Classification: TRANSFERASE
• Organism(s): Oryctolagus cuniculus
• Mutation(s): No 


• Deposited: 1999-08-11 Released: 1999-08-13 
• Deposition Author(s): Baranidharan, S., Ray Jr., W.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.248 (Depositor) 
• R-Value Work: 
  0.183 (Depositor), 0.260 (DCC) 
• R-Value Observed: 
  0.183 (Depositor) 

Starting Model: experimental

Literature

Binding Driven Structural Changes in Crystaline Phosphoglucomutase Associated with Chemical Reaction

Baranidharan, S., Ray Jr., W.J., Liu, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 123.56 kDa 
• Atom Count: 8,828 
• Modeled Residue Count: 1,122 
• Deposited Residue Count: 1,122 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALPHA-D-GLUCOSE 1,6-BISPHOSPHATE PHOSPHOTRANSFERASE	A, B	561	Oryctolagus cuniculus	Mutation(s): 0  EC: 2.7.5.1 (PDB Primary Data), 5.4.2.2 (UniProt)
UniProt
Find proteins for P00949 (Oryctolagus cuniculus) Explore P00949  Go to UniProtKB:  P00949

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G16	C [auth A]	1,6-di-O-phosphono-alpha-D-glucopyranose C6 H13 O12 P2 RWHOZGRAXYWRNX-VFUOTHLCSA-M
CD	D [auth A], E [auth B]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.248 (Depositor) 
• R-Value Work:  0.183 (Depositor), 0.260 (DCC) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 174.42	α = 90
b = 174.42	β = 90
c = 101.1	γ = 90

Software Package:

Software Name	Purpose
O	model building
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-08-13 
Deposition Author(s): Baranidharan, S., Ray Jr., W.J.

Revision History  

• Version 1.0: 1999-08-13
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.4: 2023-08-09
  Changes: Data collection, Database references, Refinement description, Structure summary