MolNFT v2 · #155529 · protein + DNA

HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:dCTP ternary complex

6KDK: “HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:dCTP ternary complex”. X-ray diffraction at 2.56, 4 ligands (DCP, GLC, FRU). MolNFT v2 #155529 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6KDK
Type: protein + DNA
Length: 1,991 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.56
Source: Human immunodeficiency virus 1; Human immunodeficiency virus type 1; SYNTHETIC…
UniProt: D3XFN5, P12497
Ligands: DCP, GLC, FRU, MG

Structure

x-ray diffraction · resolution 2.56 · 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

DCP · 2'-deoxycytidine-5'-triphosphate · ligand · 2 copies · chains A, E, C, F
GLC · alpha-D-glucopyranose · sugar · chains B
FRU · beta-D-fructofuranose · sugar · chains B, E
MG · Magnesium ion · metal · 2 copies · chains A, C
GOL · Glycerol · additive · 4 copies · chains A, B, C, D

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

Compared structures

6KDK · HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:DCTP ternary complex · 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 6KDK · PDBe 6KDK · UniProt D3XFN5 · UniProt P12497

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