4L7Y

Deoxygenated Hb in complex with the allosteric effectors, IRL2500 and 2,3-DPG


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.203 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Novel small molecule modulators of human hemoglobin oxygen binding identified by small molecule microarray screening

Safo, M.K.Chowdhury, N.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hemoglobin subunit alpha
A, C
141Homo sapiensGene Names: HBA1, HBA2
Find proteins for P69905 (Homo sapiens)
Go to Gene View: HBA1 HBA2
Go to UniProtKB:  P69905
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Hemoglobin subunit beta
B, D
146Homo sapiensGene Names: HBB
Find proteins for P68871 (Homo sapiens)
Go to Gene View: HBB
Go to UniProtKB:  P68871
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DG2
Query on DG2

Download SDF File 
Download CCD File 
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
 Ligand Interaction
IRL
Query on IRL

Download SDF File 
Download CCD File 
B
(2R)-2-({(2S)-3-(biphenyl-4-yl)-2-[(3,5-dimethylbenzoyl)(methyl)amino]propanoyl}amino)-3-(1H-indol-3-yl)propanoic acid (non-preferred name)
C36 H35 N3 O4
UZDORQWMYRRLQV-SAIUNTKASA-N
 Ligand Interaction
MH0
Query on MH0

Download SDF File 
Download CCD File 
A, B, C, D
Mesoheme
C34 H36 Fe N4 O4
CKMCSMAXNUVLQI-RGGAHWMASA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.203 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 95.750α = 90.00
b = 98.230β = 90.00
c = 65.340γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement
CrystalCleardata collection
d*TREKdata reduction
CNSphasing
d*TREKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-07-03
    Type: Initial release
  • Version 1.1: 2014-04-16
    Type: Other
  • Version 1.2: 2016-07-27
    Type: Non-polymer description