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

E2-SUMO-Siz1 E3-SUMO-PCNA complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.213, H.215, C.236, C.239 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.213, A:H.215, A:C.236, A:C.239

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: I.11, H.12, F.13, I.21, Y.145 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.11, A:F.13 Water bridges: A:Q.22 GOL.3: 5 residues within 4Å: Chain A: K.14, W.234, A.244, L.245, E.246 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.14, A:K.14, A:L.245, A:E.246 GOL.4: 8 residues within 4Å: Chain A: I.165, A.169, T.170, Y.173, K.209, C.213, K.214, H.215 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.209, A:H.215 Water bridges: A:C.213 GOL.6: 8 residues within 4Å: Chain D: E.81, G.82, N.83, D.86, F.103, D.105, D.110, A.112 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.81, D:N.83, D:D.105 GOL.7: 5 residues within 4Å: Chain D: K.5, T.87, E.104, D.105, T.106 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.5, D:T.87, D:T.87, D:E.104 GOL.8: 5 residues within 4Å: Chain A: K.138 Chain D: Q.132, T.136, E.198, D.200 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:T.136, D:E.198, D:E.198, A:K.138

1 x 6LN: ethane-1,2-dithiol(Non-covalent)

6LN.5: 8 residues within 4Å: Chain B: C.96, L.97, N.101, Q.104 Chain C: I.82, G.83, G.84 Chain D: C.164 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Streich, F.C. et al., Capturing a substrate in an activated RING E3/E2-SUMO complex. Nature (2016)

Release Date

2016-08-10

Peptides

E3 SUMO-protein ligase SIZ1,Ubiquitin-like protein SMT3: A
SUMO-conjugating enzyme UBC9: B
Ubiquitin-like protein SMT3: C
Proliferating cell nuclear antigen: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E3 SUMO-protein ligase SIZ1,Ubiquitin-like protein SMT3

SUMO-conjugating enzyme UBC9

Ubiquitin-like protein SMT3

Proliferating cell nuclear antigen

Related Entries With Identical Sequence