SMTL ID : 3dbj.2 (3 other biounits)

Allophycocyanin from Thermosynechococcus vulcanus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-3-3-mer

Ligands

6 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 27 residues within 4Å: Chain A: L.58, V.65, N.71, A.72, M.77, T.80, C.81, R.83, D.84, L.85, Y.87, Y.88, I.107, G.108, M.115, Y.116, L.119, T.121, A.125, V.126 Chain D: L.61, Y.62, T.66, Y.73, T.74, T.75, Y.78 29 PLIP interactions: 20 interactions with chain A, 9 interactions with chain D Hydrophobic interactions: A:L.58, A:V.65, A:N.71, A:A.72, A:L.85, A:Y.87, A:Y.88, A:L.119, A:A.125, A:V.126, D:L.61, D:Y.62, D:Y.73, D:Y.78 Hydrogen bonds: A:N.71, A:N.71, A:A.72, A:T.80, A:R.83, A:D.84, A:T.121, D:Y.62, D:Y.62, D:T.74 Salt bridges: A:R.83 pi-Stacking: A:Y.87 pi-Cation interactions: A:R.83 Water bridges: D:T.66, D:T.66 CYC.2: 17 residues within 4Å: Chain B: L.60, N.71, M.72, R.77, A.80, C.81, D.84, L.85, Y.87, Y.88, R.107, Y.116, L.119, V.121, P.122, A.125, T.126 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.60, B:A.80, B:L.85, B:Y.87, B:Y.87, B:Y.88, B:V.121, B:V.121, B:P.122, B:A.125 Hydrogen bonds: B:D.84, B:Y.116 Salt bridges: B:R.77 CYC.3: 27 residues within 4Å: Chain C: L.58, V.65, N.71, A.72, M.77, T.80, C.81, R.83, D.84, L.85, Y.87, Y.88, I.107, G.108, M.115, Y.116, L.119, T.121, A.125, V.126 Chain F: L.61, Y.62, T.66, Y.73, T.74, T.75, Y.78 29 PLIP interactions: 20 interactions with chain C, 9 interactions with chain F Hydrophobic interactions: C:L.58, C:V.65, C:N.71, C:A.72, C:L.85, C:Y.87, C:Y.88, C:L.119, C:A.125, C:V.126, F:L.61, F:Y.62, F:Y.73, F:Y.78 Hydrogen bonds: C:N.71, C:N.71, C:A.72, C:T.80, C:R.83, C:D.84, C:T.121, F:Y.62, F:Y.62, F:T.74 Salt bridges: C:R.83 pi-Stacking: C:Y.87 pi-Cation interactions: C:R.83 Water bridges: F:T.66, F:T.66 CYC.4: 17 residues within 4Å: Chain D: L.60, N.71, M.72, R.77, A.80, C.81, D.84, L.85, Y.87, Y.88, R.107, Y.116, L.119, V.121, P.122, A.125, T.126 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:L.60, D:A.80, D:L.85, D:Y.87, D:Y.87, D:Y.88, D:V.121, D:V.121, D:P.122, D:A.125 Hydrogen bonds: D:D.84, D:Y.116 Salt bridges: D:R.77 CYC.5: 27 residues within 4Å: Chain B: L.61, Y.62, T.66, Y.73, T.74, T.75, Y.78 Chain E: L.58, V.65, N.71, A.72, M.77, T.80, C.81, R.83, D.84, L.85, Y.87, Y.88, I.107, G.108, M.115, Y.116, L.119, T.121, A.125, V.126 29 PLIP interactions: 20 interactions with chain E, 9 interactions with chain B Hydrophobic interactions: E:L.58, E:V.65, E:N.71, E:A.72, E:L.85, E:Y.87, E:Y.88, E:L.119, E:A.125, E:V.126, B:L.61, B:Y.62, B:Y.73, B:Y.78 Hydrogen bonds: E:N.71, E:N.71, E:A.72, E:T.80, E:R.83, E:D.84, E:T.121, B:Y.62, B:Y.62, B:T.74 Salt bridges: E:R.83 pi-Stacking: E:Y.87 pi-Cation interactions: E:R.83 Water bridges: B:T.66, B:T.66 CYC.6: 17 residues within 4Å: Chain F: L.60, N.71, M.72, R.77, A.80, C.81, D.84, L.85, Y.87, Y.88, R.107, Y.116, L.119, V.121, P.122, A.125, T.126 13 PLIP interactions: 13 interactions with chain F Hydrophobic interactions: F:L.60, F:A.80, F:L.85, F:Y.87, F:Y.87, F:Y.88, F:V.121, F:V.121, F:P.122, F:A.125 Hydrogen bonds: F:D.84, F:Y.116 Salt bridges: F:R.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGregor, A. et al., Allophycocyanin Trimer Stability and Functionality Are Primarily Due to Polar Enhanced Hydrophobicity of the Phycocyanobilin Binding Pocket. J.Mol.Biol. (2008)

Release Date

2008-11-11

Peptides

Allophycocyanin: ACE
Allophycocyanin: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

C
C

E
C

B
D

D
D

F
D

Allophycocyanin

Allophycocyanin

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