MolNFT v2 · #155531 · protein + DNA

HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:entecavir 5'-triphosphate ternary complex

6KDM: “HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:entecavir 5'-triphosphate ternary complex”. X-ray diffraction at 2.32, 2 ligands (ET9, MG). MolNFT v2 #155531 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6KDM
Type: protein + DNA
Length: 1,991 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.32
Source: Human immunodeficiency virus 1; Human immunodeficiency virus type 1; SYNTHETIC…
UniProt: D3XFN5, P12497
Ligands: ET9, MG

Structure

x-ray diffraction · resolution 2.32 · 4 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	—	protein	553	—	D3XFN5
B, D	—	protein	406	—	P12497
E	—	dna	35	—	—
F	—	dna	38	—	—

Ligands and binding sites

ET9 · [[(1R,3S,5S)-3-(2-azanyl-6-oxidanylidene-3H-purin-9-yl)-2-methylidene-5-oxidanyl-cyclopentyl]methoxy-oxidanyl-phosphory l] phosphono hydrogen phosphate · ligand · 2 copies · chains A, E, C, F
MG · Magnesium ion · metal · 2 copies · chains A, C
GOL · Glycerol · additive · 6 copies · chains A, B, E, C, D

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

6KDM · HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:ENTECAVIR 5'- triphosphate ternary… · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt D3XFN5
Every structure of UniProt P12497
Elsewhere: RCSB PDB 6KDM · PDBe 6KDM · UniProt D3XFN5 · UniProt P12497

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