SMTL ID : 2uum.2 (1 other biounit)

Crystal structure of C-phycocyanin from Phormidium, Lyngbya spp. (Marine) and Spirulina sp. (Fresh water) shows two different ways of energy transfer between two hexamers.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

hetero-6-5-1-mer

Ligands

7 x CYC: PHYCOCYANOBILIN(Covalent)(Non-covalent)

CYC.1: 23 residues within 4Å: Chain A: V.59, T.66, P.72, N.73, Y.74, A.75, R.79, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 Chain D: R.57, I.67, Y.74, T.75, S.76 23 PLIP interactions: 19 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:V.59, A:T.66, A:K.83, A:L.111, A:L.124, A:L.124, A:W.128, A:W.128, A:Y.129, D:Y.74 Hydrogen bonds: A:N.73, A:A.75, A:R.86, A:D.87, A:Y.129, D:T.75 Salt bridges: A:R.79, A:K.83, A:R.86, D:R.57 pi-Stacking: A:Y.90 pi-Cation interactions: A:R.86 Water bridges: D:T.75 CYC.4: 23 residues within 4Å: Chain C: V.59, T.66, P.72, N.73, Y.74, A.75, R.79, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 Chain F: R.57, I.67, T.75, S.76, M.79 18 PLIP interactions: 16 interactions with chain C, 2 interactions with chain F Hydrophobic interactions: C:V.59, C:T.66, C:L.111, C:F.122, C:L.124, C:L.124, C:W.128, C:Y.129 Hydrogen bonds: C:N.73, C:R.86, C:D.87, F:T.75 Salt bridges: C:R.79, C:K.83, C:R.86, F:R.57 pi-Stacking: C:Y.90 pi-Cation interactions: C:R.86 CYC.7: 23 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, S.76 Chain E: V.59, T.66, P.72, N.73, Y.74, A.75, R.79, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 19 PLIP interactions: 3 interactions with chain B, 16 interactions with chain E Hydrophobic interactions: B:Y.74, E:V.59, E:T.66, E:Y.90, E:L.111, E:L.124, E:L.124, E:W.128, E:Y.129 Hydrogen bonds: B:T.75, E:N.73, E:R.86, E:D.87 Salt bridges: B:R.57, E:R.79, E:K.83, E:R.86 pi-Stacking: E:Y.90 pi-Cation interactions: E:R.86 CYC.8: 16 residues within 4Å: Chain F: L.66, N.72, A.73, R.78, C.82, R.84, D.85, M.86, I.88, R.108, C.109, Y.117, L.120, T.122, S.126, V.127 10 PLIP interactions: 10 interactions with chain F Hydrophobic interactions: F:L.66, F:I.88, F:L.120, F:T.122, F:V.127 Hydrogen bonds: F:N.72, F:R.84, F:D.85 Salt bridges: F:R.84 pi-Cation interactions: F:R.84 CYC.10: 23 residues within 4Å: Chain G: V.59, T.66, P.72, N.73, Y.74, A.75, R.79, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 Chain J: R.57, I.67, Y.74, T.75, S.76 21 PLIP interactions: 18 interactions with chain G, 3 interactions with chain J Hydrophobic interactions: G:V.59, G:L.111, G:L.111, G:L.124, G:L.124, G:W.128, G:W.128, G:Y.129, J:Y.74 Hydrogen bonds: G:N.73, G:A.75, G:R.79, G:R.86, G:D.87, G:Y.129, J:T.75 Salt bridges: G:K.83, G:R.86, J:R.57 pi-Stacking: G:Y.90 pi-Cation interactions: G:R.86 CYC.13: 22 residues within 4Å: Chain I: V.59, T.66, P.72, N.73, Y.74, A.75, R.79, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 Chain L: R.57, I.67, T.75, S.76 19 PLIP interactions: 17 interactions with chain I, 2 interactions with chain L Hydrophobic interactions: I:V.59, I:T.66, I:L.111, I:L.124, I:L.124, I:W.128, I:W.128, I:Y.129 Hydrogen bonds: I:N.73, I:R.86, I:D.87, I:Y.129, L:T.75 Salt bridges: I:R.79, I:K.83, I:R.86, L:R.57 pi-Stacking: I:Y.90 pi-Cation interactions: I:R.86 CYC.16: 22 residues within 4Å: Chain H: R.57, I.67, T.75, S.76, M.79 Chain K: V.59, T.66, P.72, N.73, Y.74, A.75, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, F.122, L.124, W.128, Y.129 20 PLIP interactions: 3 interactions with chain H, 17 interactions with chain K Hydrogen bonds: H:T.75, K:N.73, K:A.75, K:R.79, K:R.86, K:D.87 Water bridges: H:R.57 Salt bridges: H:R.57, K:K.83, K:R.86 Hydrophobic interactions: K:V.59, K:T.66, K:K.83, K:L.111, K:L.111, K:L.124, K:L.124, K:W.128 pi-Stacking: K:Y.90 pi-Cation interactions: K:R.86

11 x BLA: BILIVERDINE IX ALPHA(Non-covalent)

BLA.2: 16 residues within 4Å: Chain B: N.72, A.73, R.78, A.81, C.82, R.84, D.85, M.86, I.88, R.108, C.109, L.113, Y.117, L.120, T.122, S.126 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:A.81, B:I.88, B:L.113, B:L.120, B:L.120, B:T.122 Hydrogen bonds: B:N.72, B:R.84, B:D.85 Salt bridges: B:R.84 pi-Cation interactions: B:R.84 BLA.3: 18 residues within 4Å: Chain A: F.28 Chain B: N.35, K.36, D.39, V.40, N.42, V.142, D.144, I.148, T.149, P.150, G.151, D.152, C.153 Chain K: Q.33, D.145, V.148, E.149 16 PLIP interactions: 5 interactions with chain K, 11 interactions with chain B Hydrophobic interactions: K:V.148, K:E.149, B:D.39, B:V.40, B:N.42, B:I.148, B:T.149 Hydrogen bonds: K:Q.33, K:D.145, K:D.145, B:A.32, B:D.39, B:T.149, B:T.149, B:G.151, B:C.153 BLA.5: 17 residues within 4Å: Chain D: L.66, N.72, A.73, R.78, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, L.113, Y.117, L.120, T.122, S.126, V.127 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:N.72, D:Y.92, D:L.113, D:L.120, D:L.120, D:T.122 Hydrogen bonds: D:N.72, D:R.84, D:D.85, D:T.122 Salt bridges: D:R.78, D:R.84 pi-Cation interactions: D:R.84 BLA.6: 18 residues within 4Å: Chain C: F.28 Chain D: N.35, K.36, D.39, V.40, N.42, V.142, D.144, I.148, T.149, P.150, G.151, D.152, C.153 Chain I: Q.33, D.145, V.148, E.149 14 PLIP interactions: 4 interactions with chain I, 10 interactions with chain D Hydrophobic interactions: I:V.148, I:E.149, D:K.36, D:D.39, D:V.40, D:I.148, D:T.149 Hydrogen bonds: I:Q.33, I:D.145, D:D.39, D:T.149, D:T.149, D:G.151, D:C.153 BLA.9: 15 residues within 4Å: Chain E: F.28 Chain F: N.35, D.39, N.42, V.142, D.144, I.148, T.149, P.150, G.151, D.152, C.153 Chain G: Q.33, D.145, V.148 13 PLIP interactions: 4 interactions with chain G, 8 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: G:V.148, F:V.142, F:I.148, F:I.148, F:T.149, E:F.28 Hydrogen bonds: G:Q.33, G:D.145, G:D.145, F:D.39, F:T.149, F:T.149, F:G.151 BLA.11: 18 residues within 4Å: Chain H: L.59, L.66, N.72, A.73, R.78, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, Y.117, L.120, T.122, S.126, V.127 9 PLIP interactions: 9 interactions with chain H Hydrophobic interactions: H:L.59, H:R.78, H:Y.92, H:T.122 Hydrogen bonds: H:N.72, H:R.84, H:D.85 Salt bridges: H:R.84 pi-Cation interactions: H:R.84 BLA.12: 18 residues within 4Å: Chain E: Q.33, D.145, V.148, E.149 Chain G: F.28 Chain H: A.32, N.35, K.36, D.39, N.42, V.142, D.144, I.148, T.149, P.150, G.151, D.152, C.153 13 PLIP interactions: 8 interactions with chain H, 5 interactions with chain E Hydrophobic interactions: H:K.36, H:I.148, H:T.149, E:V.148, E:E.149 Hydrogen bonds: H:D.39, H:T.149, H:T.149, H:G.151, H:C.153, E:Q.33, E:D.145, E:D.145 BLA.14: 16 residues within 4Å: Chain J: L.66, N.72, A.73, R.78, C.82, R.84, D.85, M.86, I.88, R.108, L.113, Y.117, L.120, T.122, S.126, V.127 10 PLIP interactions: 10 interactions with chain J Hydrophobic interactions: J:N.72, J:L.113, J:L.120, J:T.122 Hydrogen bonds: J:N.72, J:R.84, J:D.85, J:T.122 Salt bridges: J:R.84 pi-Cation interactions: J:R.84 BLA.15: 18 residues within 4Å: Chain C: Q.33, D.145, V.148, E.149 Chain I: F.28 Chain J: N.35, K.36, D.39, V.40, N.42, V.142, D.144, I.148, T.149, P.150, G.151, D.152, C.153 15 PLIP interactions: 10 interactions with chain J, 1 interactions with chain I, 4 interactions with chain C Hydrophobic interactions: J:K.36, J:V.40, J:N.42, J:I.148, J:I.148, I:F.28, C:V.148, C:E.149 Hydrogen bonds: J:A.32, J:D.39, J:T.149, J:T.149, J:G.151, C:Q.33, C:D.145 BLA.17: 16 residues within 4Å: Chain L: N.72, A.73, R.78, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, Y.117, L.120, T.122, S.126, V.127 10 PLIP interactions: 10 interactions with chain L Hydrophobic interactions: L:I.88, L:I.88, L:Y.92, L:L.120, L:T.122 Hydrogen bonds: L:N.72, L:R.84, L:D.85 Salt bridges: L:R.84 pi-Cation interactions: L:R.84 BLA.18: 18 residues within 4Å: Chain A: Q.33, D.145, V.148, E.149 Chain K: F.28 Chain L: N.35, K.36, D.39, V.40, N.42, R.43, V.142, D.144, I.148, T.149, P.150, G.151, C.153 14 PLIP interactions: 10 interactions with chain L, 4 interactions with chain A Hydrophobic interactions: L:V.40, L:V.142, L:I.148, L:T.149, A:V.148, A:E.149 Hydrogen bonds: L:D.39, L:T.149, L:G.151, L:C.153, A:Q.33, A:D.145 Water bridges: L:T.149, L:T.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Satyanarayana, L. et al., Crystal Structure of C-Phycocyanin from Phormidium, Lyngbya Spp. (Marine) and Spirulina Sp. (Fresh Water) Shows Two Different Ways of Energy Transfer between Two Hexamers. To be Published

Release Date

2008-05-27

Peptides

C-PHYCOCYANIN ALPHA CHAIN: ACEGIK
C-PHYCOCYANIN BETA CHAIN: BDFHJ
C-PHYCOCYANIN BETA CHAIN: L

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
M

C
O

E
Q

G
S

I
U

K
W

B
N

D
P

F
R

H
T

J
V

L
X

C-PHYCOCYANIN ALPHA CHAIN

C-PHYCOCYANIN BETA CHAIN

C-PHYCOCYANIN BETA CHAIN

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