4B3Q

Structures of HIV-1 RT and RNA-DNA Complex Reveal a Unique RT Conformation and Substrate Interface

Structural Biology Knowledgebase: 4B3Q SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.0 Å
  • R-Value Free: 0.407
  • R-Value Work: 0.361

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B3Q

Classification: HYDROLASE / DNA / RNA

Total Structure Weight: 136115.91


Macromolecule Entities
Molecule Chains Length Organism Details
REVERSE TRANSCRIPTASE/RIBONUCLEASE H A 560 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB 2.7.7.7 IUBMB 3.1.13.2 IUBMB 3.1.26.13 IUBMB 3.4.23.16 IUBMB
Mutation: S68G, R83K, I411V, N447S, R461K, Y483H, V559I
Gene Name(s): gag-pol
P51 RT B 454 Human immunodeficiency virus 1 Mutation: S68G, R83K, I411V
Gene Name(s): gag-pol
Macromolecule Entities
Molecule Chains Length Organism Details
PRIMER DNA D 25 synthetic
TEMPLATE RNA R 34 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NVP
Query on NVP

A 11-CYCLOPROPYL-5,11-DIHYDRO-4-METHYL-6H-DIPYRIDO[3,2- B:2',3'-E][1,4]DIAZEPIN-6-ONE
NON-NUCLEOSIDE RT INHIBITOR NEVIRAPINE (Synonym)
C15 H14 N4 O
NQDJXKOVJZTUJA-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NVP EC50: 20 - >7500 nM (98) BindingDB
IC50: 60 - 160000 nM (98) BindingDB
Ki: 400 - 36000 nM (98) BindingDB

N/A in BindingMoad
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
N
Query on N
R RNA LINKING C5 H11 O7 P --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 5.0 Å
  • R-Value Free: 0.407
  • R-Value Work: 0.361
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 272.70 α = 90.00
b = 272.70 β = 90.00
c = 233.10 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-25
  • Released Date: 2013-01-16
  • Deposition author(s): Lapkouski, M., Tian, L., Miller, J.T., Le Grice, S.F.J., Yang, W.

Revision History

  • 2013-02-20
    Type: Citation | Details: JRNL
  • 2013-01-23
    Type: Citation | Details: JRNL