SMTL ID : 5em2.1 (1 other biounit)

Crystal structure of the Erb1-Ytm1 complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.67 Å

Oligo State

hetero-oligomer

Ligands

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

EDO.1: 4 residues within 4Å: Chain A: Q.74, V.75, W.76, S.77 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.74, A:Q.74, A:S.77, A:S.77 EDO.2: 5 residues within 4Å: Chain A: V.53, E.68, L.69, L.70 Chain B: Q.322 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.53, A:L.69, A:L.70, B:D.233 EDO.3: 9 residues within 4Å: Chain A: R.44, S.45, N.87, T.88, R.90, R.308, A.309, L.364, D.365 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.45, A:R.308 Water bridges: A:S.266 EDO.4: 4 residues within 4Å: Chain A: R.37, D.381, T.383, R.385 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.37, A:R.37, A:R.385 Water bridges: A:R.385 EDO.5: 3 residues within 4Å: Chain A: T.299, R.301, F.302 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.301 EDO.6: 6 residues within 4Å: Chain A: H.229, L.234, K.255, G.273, D.274, L.290 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.255, A:D.274

1 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 1 residues within 4Å: Chain A: D.274 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.274, A:D.274

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thoms, M. et al., Concerted removal of the Erb1-Ytm1 complex in ribosome biogenesis relies on an elaborate interface. Nucleic Acids Res. (2016)

Release Date

2015-12-23

Peptides

Ribosome biogenesis protein ERB1: A
Ribosome biogenesis protein YTM1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribosome biogenesis protein ERB1

Ribosome biogenesis protein YTM1

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