SMTL ID : 6emg.1 (1 other biounit)

Crystal structure of Rrp1 from Chaetomium thermophilum in space group P6322

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.24 Å

Oligo State

monomer

Ligands

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 4 residues within 4Å: Chain A: K.52, Y.56, R.99, E.100 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.56, A:E.100, A:E.100 Salt bridges: A:K.52, A:R.99 PO4.2: 3 residues within 4Å: Chain A: Q.152, S.153, D.156 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.152, A:Q.152

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 6 residues within 4Å: Chain A: A.64, Q.67, Q.68, E.110, K.111, L.114 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.64, A:Q.68 EDO.4: 3 residues within 4Å: Chain A: K.12, H.13, S.16 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.12, A:H.13 Water bridges: A:S.17, A:S.17 EDO.5: 2 residues within 4Å: Chain A: K.12, H.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.12 Water bridges: A:P.9 EDO.6: 5 residues within 4Å: Chain A: E.110, L.113, L.114, R.117, H.196 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.117 EDO.7: 1 residues within 4Å: Chain A: P.66 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain A: R.117, R.118, R.207 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.117, A:R.118, A:R.118, A:R.207, A:R.207 EDO.9: 4 residues within 4Å: Chain A: R.36, L.81, P.82, R.83 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.36, A:R.36, A:L.81, A:R.83

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.10: 4 residues within 4Å: Chain A: V.191, S.238, P.239, A.240 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:V.191 Water bridges: A:E.171, A:E.171, A:I.189, A:I.189, A:R.194, A:R.194

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kater, L. et al., Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes. Cell (2017)

Release Date

2017-12-27

Peptides

G0S4M2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

G0S4M2

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