6VDK: CryoEM structure of HIV-1 conserved Intasome Core

PDB ID: 6VDKDownload
MMDB ID: 183954
PDB Deposition Date: 2019/12/27
Updated in MMDB: 2025/06
Experimental Method:
electron microscopy
Resolution: 4.5  Å
Source Organism:
Human immunodeficiency virus 1▼
Similar Structures:
Biological Unit for 6VDK: dodecameric; determined by author
Molecular Components in 6VDK
Label Count Molecule
Proteins (8 molecules)
8
Integrase
Molecule annotation
Nucleotides(4 molecules)
2
DNA (27-mer)
Molecule annotation
2
DNA (25-mer)
Molecule annotation
Chemicals and Non-standard biopolymers (6 molecules)
1
4
MAGNESIUM IONMAGNESIUM ION
2
2
(4R,12aS)-N-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2H-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide(4R,12aS)-N-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6,8-dioxo-3,4,6,8,12,12a-hexahydro-2H-pyrido[1',2':4,5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303