3D17

A triply ligated crystal structure of relaxed state human hemoglobin

Structural Biology Knowledgebase: 3D17 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.297
  • R-Value Work: 0.232

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3D17

Classification: OXYGEN BINDING

Total Structure Weight: 65008.77

Macromolecule Entities
Molecule Chains Length Organism Details
Hemoglobin subunit alpha A, C 141 Homo sapiens Gene Name(s): HBA1 Gene View HBA2 Gene View
Hemoglobin subunit beta B, D 146 Homo sapiens Gene Name(s): HBB Gene View

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

A, B, C, D PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

B, D PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MBN
Query on MBN

A TOLUENE
C7 H8
YXFVVABEGXRONW-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CMO
Query on CMO

A, B, D 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: 2.8 Å
  • R-Value Free: 0.297
  • R-Value Work: 0.232
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 87.28 α = 90.00
b = 87.28 β = 90.00
c = 174.47 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-05
  • Released Date: 2008-06-03
  • Deposition author(s): Safo, M.K., Musayev, F.N., Jenkins, J., Abraham, D.J.

Revision History

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