1DMP Aspartyl Proteinase date Nov 01, 1996
title Structure Of Hiv-1 Protease Complex
authors C.H.Chang
compound source
Molecule: Hiv-1 Protease
Chain: A, B
Engineered: Yes
Other_details: Complex With Dmp450 Of Dupont Merck
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 11676
Strain: Bh102 Isolate
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 61
R_factor 0.210 R_Free NULL
length a length b length c angle alpha angle beta angle gamma
62.800 62.800 83.500 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand CSO, DMQ BindingDB enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1MSM, 1NPV
A, B

Primary referenceImproved cyclic urea inhibitors of the HIV-1 protease: synthesis, potency, resistance profile, human pharmacokinetics and X-ray crystal structure of DMP 450., Hodge CN, Aldrich PE, Bacheler LT, Chang CH, Eyermann CJ, Garber S, Grubb M, Jackson DA, Jadhav PK, Korant B, Lam PY, Maurin MB, Meek JL, Otto MJ, Rayner MM, Reid C, Sharpe TR, Shum L, Winslow DL, Erickson-Viitanen S, Chem Biol 1996 Apr;3(4):301-14. PMID:8807858
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (1dmp.pdb1.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 1DMP
  • CSU: Contacts of Structural Units for 1DMP
  • Likely Quarternary Molecular Structure file(s) for 1DMP
  • Retrieve 1DMP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DMP from S2C, [Save to disk]
  • View 1DMP in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1DMP
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1DMP, from MSDmotif at EBI
  • Genome occurence of 1DMP's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dmpa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dmpb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1dmp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dmp] [1dmp_B] [1dmp_A]
  • SWISS-PROT database: [P04585]
  • Domain organization of [POL_HV1H2] by SWISSPFAM
  • Other resources with information on 1DMP
  • Community annotation for 1DMP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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