SMTL ID : 1r6z.1 (3 other biounits)

The Crystal Structure of the Argonaute2 PAZ domain (as a MBP fusion)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-trimer

Ligands

3 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 15 residues within 4Å: Chain A: N.13, D.15, K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, W.341, R.345 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.63, A:R.67, A:E.154, A:Y.156, A:R.345 GLC-GLC.2: 14 residues within 4Å: Chain B: N.13, D.15, K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, W.341 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:W.63, B:R.67, B:E.154, B:Y.156 GLC-GLC.3: 13 residues within 4Å: Chain C: D.15, K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, W.341 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:W.63, C:R.67, C:R.67, C:E.154, C:Y.156, C:R.345

9 x NI: NICKEL (II) ION(Non-covalent)

NI.4: 2 residues within 4Å: Chain A: H.454, D.455 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.454, A:D.455 NI.5: 2 residues within 4Å: Chain A: H.40 Ligands: NI.6 No protein-ligand interaction detected (PLIP) NI.6: 2 residues within 4Å: Chain A: H.40 Ligands: NI.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.40, A:H.40 NI.7: 2 residues within 4Å: Chain B: H.454, D.455 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.454 NI.8: 1 residues within 4Å: Chain B: H.40 No protein-ligand interaction detected (PLIP) NI.9: 1 residues within 4Å: Chain B: H.40 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.40 NI.10: 2 residues within 4Å: Chain C: H.454, D.455 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.454, C:D.455, C:D.455 NI.11: 2 residues within 4Å: Chain C: H.40 Ligands: NI.12 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:H.40, C:H.40 NI.12: 2 residues within 4Å: Chain C: H.40 Ligands: NI.11 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:H.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Song, J.J. et al., The crystal structure of the Argonaute2 PAZ domain reveals an RNA binding motif in RNAi effector complexes. Nat.Struct.Biol. (2003)

Release Date

2004-01-13

Peptides

Chimera of Maltose-binding periplasmic protein and Argonaute 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
P

B
A

C
Z

Chimera of Maltose-binding periplasmic protein and Argonaute 2

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