SMTL ID : 4b0z.1

Crystal structure of S. pombe Rpn12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

4 x NO3: NITRATE ION(Non-functional Binders)

NO3.1: 4 residues within 4Å: Chain A: K.34, F.43, R.77, Q.81 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.34, A:R.77, A:Q.81 NO3.2: 6 residues within 4Å: Chain A: L.37, A.38, N.41, L.42, F.43, V.44 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.43, A:V.44 NO3.3: 7 residues within 4Å: Chain A: R.56, F.85, Y.86, L.90, P.92, S.93, M.96 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.56, A:S.93 Water bridges: A:D.88, A:L.90 NO3.5: 7 residues within 4Å: Chain B: R.56, F.85, Y.86, L.90, P.92, S.93, M.96 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.56, B:F.85 Water bridges: B:L.90, B:L.90, B:S.93

2 x SGM: MONOTHIOGLYCEROL(Covalent)(Non-covalent)

SGM.4: 6 residues within 4Å: Chain A: I.67, Q.68, T.69, C.70, S.166, Y.167 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.67, A:S.166 Water bridges: A:Y.167 SGM.6: 5 residues within 4Å: Chain B: I.67, Q.68, T.69, C.70, Y.167 No protein-ligand interaction detected (PLIP)

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain B: S.53, R.56, N.57, L.90, V.91 Ligands: GOL.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.53, B:S.53, B:V.91 Water bridges: B:R.56, B:R.56 GOL.8: 4 residues within 4Å: Chain B: K.49, E.50, S.53 Ligands: GOL.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.53, B:S.53 GOL.9: 6 residues within 4Å: Chain B: E.36, Q.40, L.42, E.50, K.51, F.54 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boehringer, J. et al., Structural and Functional Characterisation of Rpn12 Identifies Residues Required for Rpn10 Proteasome Incorporation. Biochem.J. (2012)

Release Date

2012-09-12

Peptides

26S PROTEASOME REGULATORY SUBUNIT RPN12: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

26S PROTEASOME REGULATORY SUBUNIT RPN12