2B6A

Crystal structure of HIV-1 reverse transcriptase (RT) in complex with THR-50

• PDB DOI: https://doi.org/10.2210/pdb2B6A/pdb

• Classification: TRANSFERASE
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-09-30 Released: 2005-11-01 
• Deposition Author(s): Morningstar, M.L., Roth, T., Smith, M.K., Zajac, M., Watson, K., Buckheit, R.W., Das, K., Zhang, W., Arnold, E., Michejda, C.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 
  0.277 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.230 (DCC) 

Starting Model: experimental

Literature

Crystal structure of HIV-1 reverse transcriptase (RT) in complex with THR-50

Morningstar, M.L., Roth, T., Smith, M.K., Zajac, M., Watson, K., Buckheit, R.W., Das, K., Zhang, W., Arnold, E., Michejda, C.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 115.15 kDa 
• Atom Count: 7,921 
• Modelled Residue Count: 985 
• Deposited Residue Count: 990 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Reverse transcriptase p66 subunit	A	560	Human immunodeficiency virus 1	Mutation(s): 1  Gene Names: POL EC: 2.7.7.49
UniProt
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B (isolate BH10)) Explore P03366  Go to UniProtKB:  P03366

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Reverse transcriptase p51 subunit	B	430	Human immunodeficiency virus 1	Mutation(s): 1  Gene Names: POL EC: 2.7.7.49
UniProt
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B (isolate BH10)) Explore P03366  Go to UniProtKB:  P03366

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
T50	C [auth A]	1-(2,6-DIFLUOROBENZYL)-2-(2,6-DIFLUOROPHENYL)-4-METHYL-1H-BENZIMIDAZOLE C21 H14 F4 N2 JIYRSPUMGRIYBL-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
T50	BindingDB:  2B6A	IC50: min: 200, max: 2.00e+5 (nM) from 2 assay(s)
		EC50: min: 100, max: 2.00e+4 (nM) from 13 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free:  0.277 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.230 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 227.706	α = 90
b = 70.168	β = 105.82
c = 106.63	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction
SCALEPACK	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-11-01 
Deposition Author(s): Morningstar, M.L., Roth, T., Smith, M.K., Zajac, M., Watson, K., Buckheit, R.W., Das, K., Zhang, W., Arnold, E., Michejda, C.J.

Revision History  

• Version 1.0: 2005-11-01
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2021-10-20
  Changes: Database references, Derived calculations
• Version 1.4: 2023-08-23
  Changes: Data collection, Refinement description