Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 Pseudo Symmetry: Dihedral - D2  (3D View)
Pseudo Stoichiometry: Homo 4-mer -A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 64877.09 
• Atom Count: 4579 
• Residue Count: 574 
• Unique protein chains: 2

1B86

HUMAN DEOXYHAEMOGLOBIN-2,3-DIPHOSPHOGLYCERATE COMPLEX

• DOI: 10.2210/pdb1B86/pdb

• Classification: OXYGEN TRANSPORT
• Organism(s): Homo sapiens


• Deposited: 1999-02-08 Released: 1999-02-14 
• Deposition Author(s): Richard, V., Dodson, G.G., Mauguen, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Work: 0.169 

Literature

Human deoxyhaemoglobin-2,3-diphosphoglycerate complex low-salt structure at 2.5 A resolution.

Richard, V., Dodson, G.G., Mauguen, Y.

(1993) J.Mol.Biol. 233: 270-274

• PubMed: 8377203 
• DOI: 10.1006/jmbi.1993.1505


• PubMed Abstract: 
  

The haemoglobin-2,3-diphosphoglycerate complex structure has been solved at 2.5 A resolution using crystals grown from low-salt solutions. The results show some important differences with the precedent haemoglobin-2,3-diphosphoglycerate high-salt structure solved by Arnone. First, we observe a loss of symmetry in the binding site, secondly both of the lysine residues 82 beta interact with 2,3-diphosphoglycerate at the same time, each making two contacts. This level of interaction is in agreement with the functional behaviour of natural haemoglobin mutants with mutations at the 2,3-diphosphoglycerate binding site.

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Organizational Affiliation: 

Department of Chemistry, University of York Heslington, U.K.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PROTEIN (HEMOGLOBIN; ALPHA CHAIN)	A, C	141	Homo sapiens	Mutation(s): 0  Gene Names: HBA1, HBA2
Find proteins for P69905 (Homo sapiens) Go to Gene View: HBA1 HBA2 Go to UniProtKB:  P69905

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
PROTEIN (HEMOGLOBIN; BETA CHAIN)	B, D	146	Homo sapiens	Mutation(s): 0  Gene Names: HBB
Find proteins for P68871 (Homo sapiens) Go to Gene View: HBB Go to UniProtKB:  P68871

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
OXY	A, C	OXYGEN MOLECULE O2 MYMOFIZGZYHOMD-UHFFFAOYSA-N
DG2	D	(2R)-2,3-diphosphoglyceric acid 2,3-Bisphosphoglyceric acid; 2,3-bisphosphoglycerate; 2,3-BPG; 2,3-diphosphoglyceric acid; 2,3-diphosphoglycerate; 2,3-DPG; (2~{R})-2,3-diphosphonooxypropanoic acid C3 H8 O10 P2 XOHUEYCVLUUEJJ-UWTATZPHSA-N
HEM	A, B, C, D	PROTOPORPHYRIN IX CONTAINING FE HEME C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• R-Value Work: 0.169 
• Space Group: P 2₁ 2₁ 2 A

Unit Cell:

Length (Å)	Angle (°)
a = 96.300	α = 90.00
b = 98.080	β = 90.00
c = 65.760	γ = 90.00

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-02-08 
• Released Date: 1999-02-14 
• Deposition Author(s): Richard, V., Dodson, G.G., Mauguen, Y.

Revision History 

• Version 1.0: 1999-02-14
  Type: Initial release
• Version 1.1: 2008-04-26
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2011-09-07
  Type: Non-polymer description, Other, Refinement description