SMTL ID : 4fk5.1

Structure of the SAGA Ubp8(S144N)/Sgf11/Sus1/Sgf73 DUB module

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.9, H.11, C.101, C.104 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.9, A:H.11, A:C.101, A:C.104 ZN.2: 4 residues within 4Å: Chain A: C.51, C.54, C.73, H.78 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.51, A:C.54, A:C.73, A:H.78 ZN.3: 4 residues within 4Å: Chain A: C.65, C.68, H.82, H.88 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.65, A:C.68, A:H.82, A:H.88 ZN.4: 4 residues within 4Å: Chain A: H.175, C.179, C.187, C.190 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.175, A:C.179, A:C.187, A:C.190 ZN.5: 4 residues within 4Å: Chain A: H.255, C.276, C.278, H.281 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.255, A:C.276, A:C.278, A:H.281 ZN.6: 4 residues within 4Å: Chain A: C.294, C.297, C.341, C.344 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.294, A:C.297, A:C.341, A:C.344 ZN.9: 4 residues within 4Å: Chain C: C.73, C.76, H.88, C.92 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.73, C:C.76, C:H.88, C:C.92 ZN.11: 3 residues within 4Å: Chain D: C.78, C.81, H.93 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:C.78, D:C.81, D:H.93

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 4 residues within 4Å: Chain A: Y.322, N.392, N.395 Chain B: Q.35 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.392 Water bridges: A:N.392, A:K.394, A:N.395, A:N.395, A:N.395, B:Q.35 GOL.10: 9 residues within 4Å: Chain A: L.98, G.109, N.115 Chain C: R.30, T.33, Q.34, L.37 Chain D: K.71, Q.74 5 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 3 interactions with chain C Hydrogen bonds: A:N.115, C:T.33, C:T.33 Water bridges: D:K.71, C:R.30

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

EDO.8: 3 residues within 4Å: Chain A: N.30, A.31, Y.34 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Samara, N.L. et al., A Role for Intersubunit Interactions in Maintaining SAGA Deubiquitinating Module Structure and Activity. Structure (2012)

Release Date

2012-07-25

Peptides

Ubiquitin carboxyl-terminal hydrolase 8: A
Protein SUS1: B
SAGA-associated factor 11: C
SAGA-associated factor 73: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
E

Ubiquitin carboxyl-terminal hydrolase 8

Protein SUS1

SAGA-associated factor 11

SAGA-associated factor 73

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