SMTL ID : 1phn.2 (4 other biounits)

STRUCTURE OF PHYCOCYANIN FROM CYANIDIUM CALDARIUM AT 1.65A RESOLUTION

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-oligomer

Ligands

12 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 25 residues within 4Å: Chain A: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 Chain D: R.57, I.67, Y.74, T.75, N.76, M.79 22 PLIP interactions: 18 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:V.59, A:T.66, A:K.83, A:K.83, A:I.88, A:Y.90, A:I.118, A:F.122, A:W.128, A:W.128, A:Y.129, D:Y.74 Hydrogen bonds: A:A.75, A:R.86, D:T.75 Water bridges: A:K.83, A:F.122, D:R.57 Salt bridges: A:K.83, A:K.83, A:R.86, D:R.57 CYC.2: 18 residues within 4Å: Chain A: L.24, N.28 Chain B: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 Chain G: R.33, Q.145, N.148 17 PLIP interactions: 1 interactions with chain A, 5 interactions with chain G, 11 interactions with chain B Hydrophobic interactions: A:L.24, G:Q.145, B:N.35, B:L.38, B:V.40, B:I.148, B:T.149 Hydrogen bonds: G:Q.145, B:N.35, B:D.39, B:T.149, B:G.151 Water bridges: G:R.33, G:R.33, G:Q.145, B:N.35, B:T.149 CYC.4: 25 residues within 4Å: Chain C: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 Chain F: R.57, I.67, Y.74, T.75, N.76, M.79 22 PLIP interactions: 18 interactions with chain C, 4 interactions with chain F Hydrophobic interactions: C:V.59, C:T.66, C:K.83, C:K.83, C:I.88, C:Y.90, C:I.118, C:F.122, C:W.128, C:W.128, C:Y.129, F:Y.74 Hydrogen bonds: C:A.75, C:R.86, F:T.75 Water bridges: C:K.83, C:F.122, F:R.57 Salt bridges: C:K.83, C:K.83, C:R.86, F:R.57 CYC.5: 18 residues within 4Å: Chain C: L.24, N.28 Chain D: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 Chain K: R.33, Q.145, N.148 17 PLIP interactions: 11 interactions with chain D, 5 interactions with chain K, 1 interactions with chain C Hydrophobic interactions: D:N.35, D:L.38, D:V.40, D:I.148, D:T.149, K:Q.145, C:L.24 Hydrogen bonds: D:N.35, D:D.39, D:T.149, D:G.151, K:Q.145 Water bridges: D:N.35, D:T.149, K:R.33, K:R.33, K:Q.145 CYC.7: 25 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, N.76, M.79 Chain E: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 22 PLIP interactions: 18 interactions with chain E, 4 interactions with chain B Hydrophobic interactions: E:V.59, E:T.66, E:K.83, E:K.83, E:I.88, E:Y.90, E:I.118, E:F.122, E:W.128, E:W.128, E:Y.129, B:Y.74 Hydrogen bonds: E:A.75, E:R.86, B:T.75 Water bridges: E:K.83, E:F.122, B:R.57 Salt bridges: E:K.83, E:K.83, E:R.86, B:R.57 CYC.8: 18 residues within 4Å: Chain E: L.24, N.28 Chain F: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 Chain I: R.33, Q.145, N.148 17 PLIP interactions: 5 interactions with chain I, 11 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: I:Q.145, F:N.35, F:L.38, F:V.40, F:I.148, F:T.149, E:L.24 Hydrogen bonds: I:Q.145, F:N.35, F:D.39, F:T.149, F:G.151 Water bridges: I:R.33, I:R.33, I:Q.145, F:N.35, F:T.149 CYC.10: 25 residues within 4Å: Chain G: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 Chain J: R.57, I.67, Y.74, T.75, N.76, M.79 23 PLIP interactions: 4 interactions with chain J, 19 interactions with chain G Hydrophobic interactions: J:Y.74, G:V.59, G:T.66, G:K.83, G:K.83, G:I.88, G:Y.90, G:I.118, G:F.122, G:W.128, G:W.128, G:Y.129 Hydrogen bonds: J:T.75, G:A.75, G:R.86, G:Y.129 Water bridges: J:R.57, G:K.83, G:F.122 Salt bridges: J:R.57, G:K.83, G:K.83, G:R.86 CYC.11: 18 residues within 4Å: Chain A: R.33, Q.145, N.148 Chain G: L.24, N.28 Chain H: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 16 PLIP interactions: 2 interactions with chain G, 4 interactions with chain A, 10 interactions with chain H Hydrophobic interactions: G:L.24, A:Q.145, H:N.35, H:L.38, H:V.40, H:I.148, H:T.149 Water bridges: G:N.28, A:R.33, A:Q.145, H:N.35, H:T.149 Hydrogen bonds: A:Q.145, H:N.35, H:T.149, H:G.151 CYC.13: 25 residues within 4Å: Chain I: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 Chain L: R.57, I.67, Y.74, T.75, N.76, M.79 23 PLIP interactions: 19 interactions with chain I, 4 interactions with chain L Hydrophobic interactions: I:V.59, I:T.66, I:K.83, I:K.83, I:I.88, I:Y.90, I:I.118, I:F.122, I:W.128, I:W.128, I:Y.129, L:Y.74 Hydrogen bonds: I:A.75, I:R.86, I:Y.129, L:T.75 Water bridges: I:K.83, I:F.122, L:R.57 Salt bridges: I:K.83, I:K.83, I:R.86, L:R.57 CYC.14: 18 residues within 4Å: Chain E: R.33, Q.145, N.148 Chain I: L.24, N.28 Chain J: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 16 PLIP interactions: 10 interactions with chain J, 4 interactions with chain E, 2 interactions with chain I Hydrophobic interactions: J:N.35, J:L.38, J:V.40, J:I.148, J:T.149, E:Q.145, I:L.24 Hydrogen bonds: J:N.35, J:T.149, J:G.151, E:Q.145 Water bridges: J:N.35, J:T.149, E:R.33, E:Q.145, I:N.28 CYC.16: 25 residues within 4Å: Chain H: R.57, I.67, Y.74, T.75, N.76, M.79 Chain K: V.59, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.110, I.118, F.122, L.124, W.128, Y.129 23 PLIP interactions: 19 interactions with chain K, 4 interactions with chain H Hydrophobic interactions: K:V.59, K:T.66, K:K.83, K:K.83, K:I.88, K:Y.90, K:I.118, K:F.122, K:W.128, K:W.128, K:Y.129, H:Y.74 Hydrogen bonds: K:A.75, K:R.86, K:Y.129, H:T.75 Water bridges: K:K.83, K:F.122, H:R.57 Salt bridges: K:K.83, K:K.83, K:R.86, H:R.57 CYC.17: 18 residues within 4Å: Chain C: R.33, Q.145, N.148 Chain K: L.24, N.28 Chain L: N.35, K.36, L.38, D.39, V.40, R.43, N.143, D.144, I.148, T.149, T.150, G.151, C.153 16 PLIP interactions: 4 interactions with chain C, 10 interactions with chain L, 2 interactions with chain K Hydrophobic interactions: C:Q.145, L:N.35, L:L.38, L:V.40, L:I.148, L:T.149, K:L.24 Hydrogen bonds: C:Q.145, L:N.35, L:T.149, L:G.151 Water bridges: C:R.33, C:Q.145, L:N.35, L:T.149, K:N.28

6 x PEB: PHYCOERYTHROBILIN(Covalent)

PEB.3: 18 residues within 4Å: Chain B: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:R.78, B:A.81, B:I.88, B:Y.92, B:L.120, B:V.122, B:V.122, B:V.127 Hydrogen bonds: B:R.84 Salt bridges: B:R.77, B:R.84 pi-Cation interactions: B:R.84 PEB.6: 18 residues within 4Å: Chain D: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:R.78, D:A.81, D:I.88, D:Y.92, D:L.120, D:V.122, D:V.122, D:V.127 Hydrogen bonds: D:R.84 Salt bridges: D:R.77, D:R.84 pi-Cation interactions: D:R.84 PEB.9: 18 residues within 4Å: Chain F: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:R.78, F:A.81, F:I.88, F:Y.92, F:L.120, F:V.122, F:V.122, F:V.127 Hydrogen bonds: F:R.84 Salt bridges: F:R.77, F:R.84 pi-Cation interactions: F:R.84 PEB.12: 18 residues within 4Å: Chain H: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain H Hydrophobic interactions: H:R.78, H:A.81, H:I.88, H:Y.92, H:L.120, H:V.122, H:V.122, H:V.127 Hydrogen bonds: H:R.84 Salt bridges: H:R.77, H:R.84 pi-Cation interactions: H:R.84 PEB.15: 18 residues within 4Å: Chain J: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain J Hydrophobic interactions: J:R.78, J:A.81, J:I.88, J:Y.92, J:L.120, J:V.122, J:V.122, J:V.127 Hydrogen bonds: J:R.84 Salt bridges: J:R.77, J:R.84 pi-Cation interactions: J:R.84 PEB.18: 18 residues within 4Å: Chain L: L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, L.113, Y.117, L.120, V.122, S.126, V.127 12 PLIP interactions: 12 interactions with chain L Hydrophobic interactions: L:R.78, L:A.81, L:I.88, L:Y.92, L:L.120, L:V.122, L:V.122, L:V.127 Hydrogen bonds: L:R.84 Salt bridges: L:R.77, L:R.84 pi-Cation interactions: L:R.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stec, B. et al., Crystal structure of C-phycocyanin from Cyanidium caldarium provides a new perspective on phycobilisome assembly. Biophys.J. (1999)

Release Date

1997-09-17

Peptides

PHYCOCYANIN: ACEGIK
PHYCOCYANIN: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

I
A

K
A

B
B

D
B

F
B

H
B

J
B

L
B

PHYCOCYANIN

PHYCOCYANIN

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