1DXD

Photolyzed CO complex of Myoglobin Mb-YQR at 20K

Structural Biology Knowledgebase: 1DXD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.169
  • R-Value Work: 0.133

Literature

Macromolecules
Sequence Display for 1DXD

Classification: OXYGEN STORAGE

Total Structure Weight: 18394.10

Macromolecule Entities
Molecule Chains Length Organism Details
MYOGLOBIN A 154 Physeter catodon Mutation: L29Y, H64Q, T67R, D122N
Details: HEME BOUND TO HIS-93, CO IS PHOTODISSOCIATED FROM HEME IRON
Gene Name(s): MB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEM
Query on HEM

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

A CARBON MONOXIDE
C O
UGFAIRIUMAVXCW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Free: 0.169
  • R-Value Work: 0.133
  • Space Group: P 6

Unit Cell:

Length (Å) Angle (°)
a = 90.49 α = 90.00
b = 90.49 β = 90.00
c = 45.28 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-01-03
  • Released Date: 2000-03-27
  • Deposition author(s): Brunori, M., Vallone, B., Cutruzzola, F., Travaglini-Allocatelli, C., Berendzen, J., Chu, K., Sweet, R.M., Schlichting, I.

Revision History

  • 2012-11-28
    Type: Other | Details: REMARK 999,REMARK 525,REMARK 280
  • 2012-11-28
    Type: Sequence database correspondence | Details: SEQADV,DBREF
  • 2012-11-28
    Type: Version format compliance | Details: REMARK 4
  • 2012-11-28
    Type: Non-polymer description | Details: HETSYN,FORMUL
  • 2012-11-28
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2012-11-28
    Type: Geometry validation | Details: REMARK 500