1QMC

C-terminal DNA-binding domain of HIV-1 integrase, NMR, 42 structures

• PDB DOI: https://doi.org/10.2210/pdb1QMC/pdb

• Classification: TRANSFERASE
• Organism(s): Human immunodeficiency virus type 1 BH10
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1999-09-27 Released: 1999-12-14 
• Deposition Author(s): Eijkelenboom, A.P.A.M., Sprangers, R., Hard, K., Puras Lutzke, R.A., Plasterk, R.H.A., Boelens, R., Kaptein, R.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 42 
• Selection Criteria: LOW OVERALL ENERGY 

Literature

Refined Solution Structure of the C-Terminal DNA-Binding Domain of Human Immunovirus-1 Integrase.

Eijkelenboom, A.P.A.M., Sprangers, R., Hard, K., Puras Lutzke, R.A., Plasterk, R.H.A., Boelens, R., Kaptein, R.

(1999) Proteins 36: 556

• PubMed: 10450096 
• DOI: https://doi.org/10.1002/(sici)1097-0134(19990901)36:4<556::aid-prot18>3.0.co;2-6
• Primary Citation of Related Structures:  
  1QMC


• PubMed Abstract: 
  

  The structure of the C-terminal DNA-binding domain of human immunovirus-1 integrase has been refined using nuclear magnetic resonance spectroscopy. The protein is a dimer in solution and shows a well-defined dimer interface. The folding topology of the monomer consists of a five-stranded beta-barrel that resembles that of Src homology 3 domains. Compared with our previously reported structure, the structure is now defined far better. The final 42 structures display a back-bone root mean square deviation versus the average of 0.46 A. Correlation of the structure with recent mutagenesis studies suggests two possible models for DNA binding. Proteins 1999;36:556-564.

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Organizational Affiliation: 

Bijvoet Center for Biomolecular Research, Utrecht University, Utrecht, The Netherlands.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 12.3 kDa 
• Atom Count: 868 
• Modelled Residue Count: 104 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HIV-1 INTEGRASE	A, B	52	Human immunodeficiency virus type 1 BH10	Mutation(s): 0
UniProt
Find proteins for P03366 (Human immunodeficiency virus type 1 group M subtype B (isolate BH10)) Explore P03366  Go to UniProtKB:  P03366

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 42 
• Selection Criteria: LOW OVERALL ENERGY 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-12-14 
Deposition Author(s): Eijkelenboom, A.P.A.M., Sprangers, R., Hard, K., Puras Lutzke, R.A., Plasterk, R.H.A., Boelens, R., Kaptein, R.

Revision History  

• Version 1.0: 1999-12-14
  Type: Initial release
  
• Version 1.1: 2015-10-14
  Changes: Database references, Derived calculations, Other, Source and taxonomy, Structure summary, Version format compliance