1J40

Direct observation of photolysis-induced tertiary structural changes in human haemoglobin; Crystal structure of alpha(Ni)-beta(Fe-CO) hemoglobin (laser unphotolysed)

Structural Biology Knowledgebase: 1J40 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.165

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1J40

Classification: OXYGEN STORAGE / TRANSPORT

Total Structure Weight: 129386.98

Macromolecule Entities
Molecule Chains Length Organism Details
Hemoglobin alpha Chain A, C, E, G 141 Homo sapiens Gene Name(s): HBA1 Gene View HBA2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Hemoglobin beta Chain B, D, F, H 146 Homo sapiens Gene Name(s): HBB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HNI
Query on HNI

A, C, E, G PROTOPORPHYRIN IX CONTAINING NI(II)
C34 H32 N4 Ni O4
IJROJBFZULUEEG-QFCVZVLGDG
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HEM
Query on HEM

B, D, F, H PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
2FU
Query on 2FU

D, F BUT-2-ENEDIAL
C4 H4 O2
JGEMYUOFGVHXKV-OWOJBTEDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

B, D, F, H CARBON MONOXIDE
C O
UGFAIRIUMAVXCW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.165
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 64.71 α = 90.00
b = 94.86 β = 101.97
c = 99.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-02-21
  • Released Date: 2003-07-22
  • Deposition author(s): Adachi, S., Park, S.-Y., Tame, J.R.H., Shiro, Y., Shibayama, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4