SMTL ID : 6fzo.1

SMURFP-Y56F mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

9 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: K.18, L.53, R.54, G.57 Chain D: K.18, H.61 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:L.53 Water bridges: A:K.18 Salt bridges: A:K.18, A:R.54, D:K.18 SO4.2: 1 residues within 4Å: Chain A: K.72 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.72 SO4.7: 5 residues within 4Å: Chain B: D.28, R.32, E.99, R.102, C.103 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.99 Salt bridges: B:R.32 SO4.8: 5 residues within 4Å: Chain B: M.1, R.7, G.70, K.72, Y.123 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:M.1, B:Y.123, B:Y.123 Water bridges: B:R.7 Salt bridges: B:R.7, B:K.72 SO4.9: 2 residues within 4Å: Chain B: R.32, H.33 3 PLIP interactions: 3 interactions with chain B Water bridges: B:H.33 Salt bridges: B:R.32, B:H.33 SO4.10: 5 residues within 4Å: Chain B: G.40, G.41, R.54 Chain D: K.19 Ligands: SO4.13 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Water bridges: B:I.42 Salt bridges: B:R.54, D:K.19 SO4.13: 7 residues within 4Å: Chain B: R.54 Chain C: E.16, N.17, K.18, K.19, K.20 Ligands: SO4.10 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.17, C:K.19, C:K.20 Salt bridges: C:K.20, B:R.54 SO4.14: 7 residues within 4Å: Chain B: K.18, H.61 Chain C: K.18, L.53, R.54, G.57, H.61 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Salt bridges: B:K.18, B:H.61, C:K.18 Hydrogen bonds: C:R.54 SO4.18: 4 residues within 4Å: Chain A: K.19 Chain B: K.19 Chain D: G.41, R.54 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain B Salt bridges: D:R.54, B:K.19

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

EDO.3: 2 residues within 4Å: Chain A: H.33, D.35 No protein-ligand interaction detected (PLIP) EDO.4: 3 residues within 4Å: Chain A: Q.27, R.31 Chain C: Q.46 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Water bridges: C:Q.46 Hydrogen bonds: A:R.31, A:R.31 EDO.15: 7 residues within 4Å: Chain B: W.58 Chain C: L.14, T.15, K.18, L.60, H.61, T.64 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:H.61, C:T.64 EDO.16: 3 residues within 4Å: Chain C: P.93, V.94, P.95 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:V.94

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 1 residues within 4Å: Chain A: N.118 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: W.30, R.31 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain B: K.18, R.54, G.57 Chain C: K.18 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain B: D.113, E.115 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain C: R.32, H.33 Ligand excluded by PLIP CL.19: 1 residues within 4Å: Chain D: R.47 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fuenzalida-Werner, J.P. et al., Crystal structure of a biliverdin-bound phycobiliprotein: Interdependence of oligomerization and chromophorylation. J. Struct. Biol. (2018)

Release Date

2018-10-17

Peptides

Smurfp: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Smurfp