8TCM

Crystal Structure of modified HIV reverse transcriptase p51 domain (FPC1) with picric acid and Xanthene-1,3,6,8-tetrol bound

• PDB DOI: https://doi.org/10.2210/pdb8TCM/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): HIV whole-genome vector AA1305#18
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-02 Released: 2024-07-17 
• Deposition Author(s): Pedersen, L.C., London, R.E.
• Funding Organization(s): National Institutes of Health/National Institute of Environmental Health Sciences (NIH/NIEHS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.82 Å
• R-Value Free: 0.223 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 

Starting Model: experimental

Literature

Crystal Structure of modified HIV reverse transcriptase p51 domain (FPC1) with picric acid and xanthene bound

Pedersen, L.C., London, R.E.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 40.98 kDa 
• Atom Count: 2,812 
• Modelled Residue Count: 313 
• Deposited Residue Count: 343 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
p51 subunit	A [auth B]	343	HIV whole-genome vector AA1305#18	Mutation(s): 0
UniProt
Find proteins for P04585 (Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)) Explore P04585  Go to UniProtKB:  P04585

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZQT (Subject of Investigation/LOI)	E [auth B], F [auth B]	9H-xanthene-1,3,6,8-tetrol C13 H10 O5 WRWDLBILCDUPOS-UHFFFAOYSA-N
TNF (Subject of Investigation/LOI)	B, C [auth B], D [auth B]	PICRIC ACID C6 H3 N3 O7 OXNIZHLAWKMVMX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.82 Å
• R-Value Free: 0.223 
• R-Value Work: 0.194 
• R-Value Observed: 0.195 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.309	α = 90
b = 99.406	β = 90
c = 104.747	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Pedersen, L.C., London, R.E.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Environmental Health Sciences (NIH/NIEHS)	United States	ZIA-ES050111
National Institutes of Health/National Institute of Environmental Health Sciences (NIH/NIEHS)	United States	ZIC-ES102645

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release