SMTL ID : 3whj.3 (2 other biounits)

Crystal structure of Nas2 N-terminal domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: D.29, H.97, Q.100, R.101 Chain B: N.118 Ligands: CD.4 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:H.97, B:N.118 Salt bridges: A:H.97 SO4.2: 6 residues within 4Å: Chain A: K.40, T.41, E.44 Chain B: K.32, H.109 Ligands: CD.5 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Water bridges: B:L.33 Salt bridges: B:H.109, A:K.40 Hydrogen bonds: A:T.41, A:E.44 SO4.8: 6 residues within 4Å: Chain A: N.118 Chain B: D.29, H.97, Q.100, R.101 Ligands: CD.11 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.118, B:H.97 Salt bridges: B:H.97 SO4.9: 6 residues within 4Å: Chain A: K.32, H.109 Chain B: K.40, T.41, E.44 Ligands: CD.12 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Water bridges: A:L.33 Salt bridges: A:H.109, B:K.40 Hydrogen bonds: B:T.41, B:E.44

10 x CD: CADMIUM ION(Non-covalent)

CD.3: 1 residues within 4Å: Chain A: D.94 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.94, A:D.94, H2O.1 CD.4: 3 residues within 4Å: Chain A: D.29, H.97 Ligands: SO4.1 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.29, A:D.29, A:H.97 CD.5: 4 residues within 4Å: Chain A: K.40, E.44 Chain B: H.109 Ligands: SO4.2 4 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:H.109, A:E.44, A:E.44, H2O.2 CD.6: 1 residues within 4Å: Chain A: E.7 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.7, A:E.7, H2O.4 CD.7: 1 residues within 4Å: Chain A: D.111 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.111 CD.10: 1 residues within 4Å: Chain B: D.94 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.94, B:D.94, H2O.4 CD.11: 3 residues within 4Å: Chain B: D.29, H.97 Ligands: SO4.8 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.29, B:D.29, B:H.97 CD.12: 4 residues within 4Å: Chain A: H.109 Chain B: K.40, E.44 Ligands: SO4.9 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:E.44, B:E.44, A:H.109, H2O.5 CD.13: 1 residues within 4Å: Chain B: E.7 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.7, B:E.7, H2O.7 CD.14: 1 residues within 4Å: Chain B: D.111 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Satoh, T. et al., Structural basis for proteasome formation controlled by an assembly chaperone nas2. Structure (2014)

Release Date

2014-03-26

Peptides

Probable 26S proteasome regulatory subunit p27: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Probable 26S proteasome regulatory subunit p27

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