SMTL ID : 1ktp.5 (4 other biounits)

Crystal structure of c-phycocyanin of synechococcus vulcanus at 1.6 angstroms

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-oligomer

Ligands

4 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 21 residues within 4Å: Chain A: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, T.122, P.123, S.126, V.127 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:R.78, A:A.81, A:I.88, A:Y.92, A:L.113, A:T.116, A:L.120, A:P.123 Hydrogen bonds: A:R.84 Water bridges: A:R.77, A:R.77, A:R.78 Salt bridges: A:R.77, A:R.77, A:R.84 pi-Cation interactions: A:R.84 CYC.2: 16 residues within 4Å: Chain A: K.32, N.35, K.36, L.38, D.39, R.43, A.142, N.143, D.144, P.145, I.148, T.149, P.150, G.151, C.153, M.157 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:N.35, A:K.36, A:L.38, A:L.38, A:I.148 Hydrogen bonds: A:N.35, A:D.39, A:T.149, A:T.149, A:G.151 Water bridges: A:T.149 CYC.3: 21 residues within 4Å: Chain B: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, T.122, P.123, S.126, V.127 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:R.78, B:A.81, B:I.88, B:Y.92, B:L.113, B:T.116, B:L.120, B:P.123 Hydrogen bonds: B:R.84 Water bridges: B:R.77, B:R.77, B:R.78 Salt bridges: B:R.77, B:R.77, B:R.84 pi-Cation interactions: B:R.84 CYC.4: 16 residues within 4Å: Chain B: K.32, N.35, K.36, L.38, D.39, R.43, A.142, N.143, D.144, P.145, I.148, T.149, P.150, G.151, C.153, M.157 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:N.35, B:K.36, B:L.38, B:L.38, B:I.148 Hydrogen bonds: B:N.35, B:T.149, B:T.149, B:G.151 Water bridges: B:T.149

2 x BLA: BILIVERDINE IX ALPHA(Covalent)

BLA.5: 26 residues within 4Å: Chain A: R.57, I.67, Y.74, T.75, N.76, M.79 Chain C: V.59, T.66, S.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 28 PLIP interactions: 24 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:V.59, C:T.66, C:K.83, C:K.83, C:I.88, C:Y.90, C:L.111, C:I.118, C:F.122, C:F.122, C:L.124, C:W.128, C:W.128, C:Y.129, A:Y.74 Hydrogen bonds: C:A.75, C:R.86, C:Y.129, A:T.75, A:N.76 Water bridges: C:S.72, C:S.72, C:S.72 Salt bridges: C:K.83, C:R.86, A:R.57 pi-Stacking: C:Y.90 pi-Cation interactions: C:R.86 BLA.6: 26 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, N.76, M.79 Chain D: V.59, T.66, S.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 28 PLIP interactions: 24 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:V.59, D:T.66, D:K.83, D:K.83, D:I.88, D:Y.90, D:L.111, D:I.118, D:F.122, D:F.122, D:L.124, D:W.128, D:W.128, D:Y.129, B:Y.74 Hydrogen bonds: D:A.75, D:R.86, D:Y.129, B:T.75, B:N.76 Water bridges: D:S.72, D:S.72, D:S.72 Salt bridges: D:K.83, D:R.86, B:R.57 pi-Stacking: D:Y.90 pi-Cation interactions: D:R.86

Links

RCSB   PDBe   PDBj   PDBsum   CATH   PLIP

Citation

Adir, N. et al., Refined structure of c-phycocyanin from the cyanobacterium Synechococcus vulcanus at 1.6 A: insights into the role of solvent molecules in thermal stability and co-factor structure. Biochim.Biophys.Acta (2002)

Release Date

2002-03-06

Peptides

C-PHYCOCYANIN BETA SUBUNIT: AB
C-PHYCOCYANIN ALPHA SUBUNIT: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

C
A

D
A

C-PHYCOCYANIN BETA SUBUNIT

C-PHYCOCYANIN ALPHA SUBUNIT

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