SMTL ID : 5vo0.1

Structure of a TRAF6-Ubc13~Ub complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.90 Å

Oligo State

hetero-2-2-2-mer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.22, C.25, C.42, C.45 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.22, A:C.25, A:C.42, A:C.45 ZN.2: 5 residues within 4Å: Chain A: C.37, H.39, C.57, V.59, D.60 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:C.37, A:H.39, A:C.57, A:D.60, A:D.60 ZN.3: 4 residues within 4Å: Chain A: C.86, C.91, H.103, C.107 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.86, A:C.91, A:H.103, A:C.107 ZN.5: 4 residues within 4Å: Chain D: C.22, C.25, C.42, C.45 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.22, D:C.25, D:C.42, D:C.45 ZN.6: 5 residues within 4Å: Chain D: T.35, C.37, H.39, C.57, D.60 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.37, D:H.39, D:C.57, D:D.60 ZN.7: 4 residues within 4Å: Chain D: C.86, C.91, H.103, C.107 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.86, D:C.91, D:H.103, D:C.107 ZN.8: 4 residues within 4Å: Chain D: C.114, C.117, H.129, C.134 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.114, D:C.117, D:H.129, D:C.134 ZN.9: 4 residues within 4Å: Chain D: C.141, C.144, H.156, C.160 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.141, D:C.144, D:H.156, D:C.160

1 x K: POTASSIUM ION(Non-covalent)

K.4: 2 residues within 4Å: Chain A: E.78 Chain D: E.78 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Middleton, A.J. et al., The activity of TRAF RING homo- and heterodimers is regulated by zinc finger 1. Nat Commun (2017)

Release Date

2017-12-06

Peptides

TNF receptor-associated factor 6: AD
Ubiquitin-conjugating enzyme E2 N: BE
Ubiquitin: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

E
E

C
C

F
F

TNF receptor-associated factor 6

Ubiquitin-conjugating enzyme E2 N

Ubiquitin

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