1S1X

Crystal structure of V108I mutant HIV-1 reverse transcriptase in complex with nevirapine

Structural Biology Knowledgebase: 1S1X SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.235

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1S1X

Classification: TRANSFERASE

Total Structure Weight: 116289.69

Macromolecule Entities
Molecule Chains Length Organism Details
Reverse transcriptase A 560 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: P66
Mutation: V108I, C280X
Gene Name(s): gag-pol
Reverse transcriptase B 440 Human immunodeficiency virus 1 EC#: 2.7.7.49 IUBMB
Fragment: P51
Mutation: V108I
Gene Name(s): gag-pol

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NVP EC50: 20 - >7500 nM (99) BindingDB
IC50: 2.6 - 23000 nM (94 - 99) BindingDB
Ki: 400 - 36000 nM (99) BindingDB

N/A in BindingMoad
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSD
Query on CSD
A L-PEPTIDE LINKING C3 H7 N O4 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.235
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 138.40 α = 90.00
b = 109.00 β = 90.00
c = 72.80 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-01-07
  • Released Date: 2004-06-29
  • Deposition author(s): Ren, J., Nichols, C.E., Chamberlain, P.P., Stammers, D.K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4