2BE2

Crystal structure of HIV-1 reverse transcriptase (RT) in complex with R221239

Structural Biology Knowledgebase: 2BE2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.43 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.235

Literature

Macromolecules
Sequence Display for 2BE2

Classification: TRANSFERASE

Total Structure Weight: 116189.10

Macromolecule Entities
Molecule Chains Length Organism Details
REVERSE TRANSCRIPTASE P66 SUBUNIT A 560 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: residues 599-1158
Mutation: C280S
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
REVERSE TRANSCRIPTASE P51 SUBUNIT B 430 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: residues 599-1028
Mutation: C280S
Gene Name(s): gag-pol

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
R22
Query on R22

A 4-(3,5-DIMETHYLPHENOXY)-5-(FURAN-2-YLMETHYLSULFANYLMETHYL)- 3-IODO-6-METHYLPYRIDIN-2(1H)-ONE
C20 H20 I N O3 S
YZLKVEDFWLGNQP-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SUC
Query on SUC

A, B SUCROSE
C12 H22 O11
CZMRCDWAGMRECN-UGDNZRGBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
R22 N/A in BindingDB
IC50: 2 nM  BindingMOAD
IC50: 2 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.43 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.235
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 223.85 α = 90.00
b = 68.80 β = 107.22
c = 104.43 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-10-21
  • Released Date: 2005-12-06
  • Deposition author(s): Himmel, D.M., Das, K., Clark Jr., A.D., Hughes, S.H., Benjahad, A., Oumouch, S., Guillemont, J., Coupa, S., Poncelet, A., Csoka, I., Meyer, C., Andries, K., Nguyen, C.H., Grierson, D.S., Arnold, E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update