SMTL ID : 8old.1 (1 other biounit)

Crystal structure of Archaeoglobus fulgidus AfAgo-N protein representing N-L1-L2 domains

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x CAC: CACODYLATE ION(Non-covalent)

CAC.1: 3 residues within 4Å: Chain A: W.65, Y.78, E.108 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: F.60, K.67, R.68 Ligand excluded by PLIP

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 3 residues within 4Å: Chain A: Y.178, K.190, W.194 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.178, A:Y.178, A:W.194 Hydrogen bonds: A:K.190 MPD.4: 1 residues within 4Å: Chain A: D.85 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.85 Water bridges: A:Y.74 MPD.5: 4 residues within 4Å: Chain A: P.41, V.43, N.156, L.253 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:P.41, A:V.43, A:L.253 Hydrogen bonds: A:N.156

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 2 residues within 4Å: Chain A: N.44, Y.45 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.44, A:Y.45, A:Y.45 Water bridges: A:E.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Manakova, E. et al., The missing part: the Archaeoglobus fulgidus Argonaute forms a functional heterodimer with an N-L1-L2 domain protein. Nucleic Acids Res. (2024)

Release Date

2024-01-24

Peptides

Archaeoglobus fulgidus AfAgo-N protein representing N-L1-L2 domains: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Archaeoglobus fulgidus AfAgo-N protein representing N-L1-L2 domains

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