SMTL ID : 6tjc.1

Crystal structure of the computationally designed Cake3 protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-trimer

Ligands

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 2 residues within 4Å: Chain A: H.38, R.51 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.53 Salt bridges: A:H.38, A:R.51 PO4.3: 3 residues within 4Å: Chain B: R.11, K.13 Chain C: H.118 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Salt bridges: B:R.11, C:H.118 PO4.4: 3 residues within 4Å: Chain B: H.38, R.51, K.53 3 PLIP interactions: 3 interactions with chain B Water bridges: B:K.53 Salt bridges: B:H.38, B:R.51 PO4.8: 3 residues within 4Å: Chain C: H.38, R.51, K.53 4 PLIP interactions: 4 interactions with chain C Water bridges: C:K.53 Salt bridges: C:H.38, C:R.51, C:K.53

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain B: E.88, W.90, R.91 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.88, B:R.91 Water bridges: B:R.91 GOL.5: 2 residues within 4Å: Chain C: E.106, D.107 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.106 GOL.6: 6 residues within 4Å: Chain A: K.93, T.94, G.95, D.116, Y.120 Chain C: R.11 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:Y.120, A:Y.120, C:R.11, C:R.11 Water bridges: A:K.93 GOL.7: 6 residues within 4Å: Chain B: G.28, P.44 Chain C: G.105, E.106, D.107, Y.111 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:E.106, C:D.107, C:Y.111, C:Y.111, B:G.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mylemans, B. et al., Structural plasticity of a designer protein sheds light on beta-propeller protein evolution. Febs J. (2021)

Release Date

2020-05-06

Peptides

Cake3: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Cake3