MolNFT v2 · #171662 · protein + DNA

Archaeoglobus fulgidus Argonaute protein with DNA oligoduplex 5'-pATCGTGGCCACGAT

6XUP: “Archaeoglobus fulgidus Argonaute protein with DNA oligoduplex 5'-pATCGTGGCCACGAT”. X-ray diffraction at 1.9, 3 ligands (MG, K, CL). MolNFT v2 #171662 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6XUP
Type: protein + DNA
Length: 828 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.9
Source: Archaeoglobus fulgidus; SYNTHETIC CONSTRUCT
UniProt: A0A101DYI0
Ligands: MG, K, CL

Structure

x-ray diffraction · resolution 1.9 · 6 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	402	—	A0A101DYI0
R	—	dna	7	—	—
S	—	dna	5	—	—
B	—	protein	401	—	A0A101DYI0
P	—	dna	6	—	—
Q	—	dna	7	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 3 copies · chains A, R, B, P
K · Potassium ion · metal · chains A
CL · Chloride ion · ion · chains A
BME · Beta-mercaptoethanol · additive · 7 copies · chains A, B
GOL · Glycerol · additive · 7 copies · chains A, B
CAC · Cacodylate ion · additive · 2 copies · chains A, B

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

Compared structures

6XUP · Archaeoglobus fulgidus argonaute protein with DNA oligoduplex 5'- patcgtggccacgat · 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 A0A101DYI0
Elsewhere: RCSB PDB 6XUP · PDBe 6XUP · UniProt A0A101DYI0

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