SMTL ID : 3zc0.1 (2 other biounits)

Structure of AfC3PO - duplex RNA complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.98 Å

Oligo State

homo-octamer

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.86, E.121 Chain E: U.10, C.11 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.86, A:E.121, H2O.1 MG.2: 2 residues within 4Å: Chain B: E.86, E.121 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.86, B:E.121, H2O.1, H2O.1 MG.4: 2 residues within 4Å: Chain C: E.86, E.121 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.86, C:E.121, H2O.1, H2O.1 MG.6: 2 residues within 4Å: Chain D: E.86, E.121 3 PLIP interactions: 2 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:E.86, D:E.121, H2O.2 MG.7: 4 residues within 4Å: Chain F: E.86, E.121 Chain J: C.11, G.12 3 PLIP interactions: 2 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:E.86, F:E.121, H2O.2 MG.8: 2 residues within 4Å: Chain G: E.86, E.121 4 PLIP interactions: 2 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:E.86, G:E.121, H2O.2, H2O.2 MG.9: 2 residues within 4Å: Chain H: E.86, E.121 4 PLIP interactions: 2 interactions with chain H, 2 Ligand-Water interactions Metal complexes: H:E.86, H:E.121, H2O.2, H2O.2 MG.11: 2 residues within 4Å: Chain I: E.86, E.121 4 PLIP interactions: 2 interactions with chain I, 2 Ligand-Water interactions Metal complexes: I:E.86, I:E.121, H2O.3, H2O.3

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

CL.3: 3 residues within 4Å: Chain B: K.64, L.104, E.105 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain C: T.128, K.129, E.132 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain H: K.129, E.132 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Parizotto, E.A. et al., Structural Basis for Duplex RNA Recognition and Cleavage by Archaeoglobus Fulgidus C3Po. Nat.Struct.Mol.Biol. (2013)

Release Date

2013-01-23

Peptides

AFTRAX: ABCDFGHI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
G

D
H

F
I

G
J

H
K

I
L

AFTRAX

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