SMTL ID : 3mhs.1

Structure of the SAGA Ubp8/Sgf11/Sus1/Sgf73 DUB module bound to ubiquitin aldehyde

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

hetero-oligomer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: N.234, Q.241, E.245 Chain D: R.72, R.74 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain A Hydrogen bonds: D:R.72, D:R.74, D:R.74, A:Q.241 Water bridges: A:S.239

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: H.372, L.373, L.374, G.376 Chain D: G.35, P.37 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.372

8 x ZN: ZINC ION(Non-covalent)

ZN.3: 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.4: 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.5: 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.6: 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.7: 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.8: 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.10: 4 residues within 4Å: Chain E: C.78, C.81, H.93, E.95 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.78, E:C.81, E:H.93, E:E.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Samara, N.L. et al., Structural insights into the assembly and function of the SAGA deubiquitinating module. Science (2010)

Release Date

2010-04-21

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Ubiquitin carboxyl-terminal hydrolase 8

Protein SUS1

SAGA-associated factor 11

Ubiquitin

SAGA-associated factor 73

Related Entries With Identical Sequence