1AJG | pdb_00001ajg

CARBONMONOXY MYOGLOBIN AT 40 K

• PDB DOI: https://doi.org/10.2210/pdb1AJG/pdb

• Classification: OXYGEN TRANSPORT
• Organism(s): Physeter macrocephalus
• Mutation(s): No 


• Deposited: 1997-05-02 Released: 1997-11-12 
• Deposition Author(s): Teng, T.Y., Srajer, V., Moffat, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 
  0.238 (Depositor) 
• R-Value Work: 
  0.171 (Depositor), 0.169 (DCC) 
• R-Value Observed: 
  0.171 (Depositor) 

Starting Model: experimental

Literature

Photolysis-induced structural changes in single crystals of carbonmonoxy myoglobin at 40 K.

Teng, T.Y., Srajer, V., Moffat, K.

(1994) Nat Struct Biol 1: 701-705

• PubMed: 7634074 
• DOI: https://doi.org/10.1038/nsb1094-701
• Primary Citation Related Structures: 
  1AJG, 1AJH


• PubMed Abstract: 
  

  Myoglobin's reversible binding of oxygen is a model for studies of protein control of ligand binding and discrimination. Protein relaxation and geminate ligand rebinding subsequent to ligand photodissociation have been studied extensively by a variety of techniques. The ps to ns time scales for these processes are still much shorter than the ms time resolution of X-ray diffraction experiments, but it may be possible to trap these intermediates at low temperatures. We report here an X-ray diffraction investigation of structural changes induced by photolysis of carbonmonoxy myoglobin crystals at 40 K. Our results provide a structural basis for the interpretation of ambient and low temperature spectroscopic observations and molecular dynamics simulations of the ligand photodissociation and binding processes in haem proteins.

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Organizational Affiliation: 
• Department of Biochemistry and Molecular Biology, University of Chicago, IL 60637, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 18.07 kDa 
• Atom Count: 1,479 
• Modeled Residue Count: 153 
• Deposited Residue Count: 153 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MYOGLOBIN	A	153	Physeter macrocephalus	Mutation(s): 0  EC: 1.11.1 (UniProt), 1.7 (UniProt)
UniProt
Find proteins for P02185 (Physeter macrocephalus) Explore P02185  Go to UniProtKB:  P02185

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	D [auth A]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CMO	E [auth A]	CARBON MONOXIDE C O UGFAIRIUMAVXCW-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free:  0.238 (Depositor) 
• R-Value Work:  0.171 (Depositor), 0.169 (DCC) 
• R-Value Observed: 0.171 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.43	α = 90
b = 30.43	β = 105.67
c = 34.12	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
CCP4	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-11-12 
Deposition Author(s): Teng, T.Y., Srajer, V., Moffat, K.

Revision History  

• Version 1.0: 1997-11-12
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-02
  Changes: Database references, Derived calculations, Other, Refinement description
• Version 1.4: 2024-05-22
  Changes: Data collection