SMTL ID : 3kvs.1

The high resolution structure of C-Phycocyanin from Galdieria Sulphuraria

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-6-6-mer

Ligands

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

BLA.1: 26 residues within 4Å: Chain A: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Chain H: R.57, I.67, Y.74, T.75, N.76, M.79 29 PLIP interactions: 25 interactions with chain A, 4 interactions with chain H Hydrophobic interactions: A:V.59, A:Y.60, A:T.66, A:K.83, A:K.83, A:Y.90, A:L.111, A:I.118, A:F.122, A:L.124, A:W.128, A:W.128, A:W.128, A:Y.129, H:Y.74 Hydrogen bonds: A:Q.73, A:A.75, A:R.86, A:D.87, A:Y.129, H:T.75 Water bridges: A:K.83, A:F.122, H:R.57 Salt bridges: A:K.83, A:K.83, A:R.86, H:R.57 pi-Cation interactions: A:R.86 BLA.2: 21 residues within 4Å: Chain A: R.33, Q.145, N.148 Chain B: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 Chain K: N.21, L.24, Q.25, N.28 24 PLIP interactions: 5 interactions with chain A, 16 interactions with chain B, 3 interactions with chain K Hydrophobic interactions: A:Q.145, B:N.35, B:K.36, B:L.38, B:V.40, B:T.149, K:L.24, K:Q.25 Hydrogen bonds: A:Q.145, B:N.35, B:N.35, B:D.39, B:D.39, B:T.149, B:T.149, B:G.151 Water bridges: A:R.33, A:Q.145, A:N.148, B:S.32, B:S.32, B:K.36, B:T.149, K:N.28 BLA.3: 23 residues within 4Å: Chain B: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:L.59, B:R.78, B:A.81, B:Y.92, B:L.113, B:L.113, B:T.116, B:L.120, B:V.122, B:V.122 Hydrogen bonds: B:R.84, B:D.85 Water bridges: B:R.77, B:R.77, B:L.120 Salt bridges: B:R.77, B:R.84 BLA.4: 26 residues within 4Å: Chain C: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Chain L: R.57, I.67, Y.74, T.75, N.76, M.79 29 PLIP interactions: 25 interactions with chain C, 4 interactions with chain L Hydrophobic interactions: C:V.59, C:Y.60, C:T.66, C:K.83, C:K.83, C:Y.90, C:L.111, C:I.118, C:F.122, C:L.124, C:W.128, C:W.128, C:W.128, C:Y.129, L:Y.74 Hydrogen bonds: C:Q.73, C:A.75, C:R.86, C:D.87, C:Y.129, L:T.75 Water bridges: C:K.83, C:F.122, L:R.57 Salt bridges: C:K.83, C:K.83, C:R.86, L:R.57 pi-Cation interactions: C:R.86 BLA.5: 21 residues within 4Å: Chain C: R.33, Q.145, N.148 Chain D: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 Chain I: N.21, L.24, Q.25, N.28 24 PLIP interactions: 16 interactions with chain D, 3 interactions with chain I, 5 interactions with chain C Hydrophobic interactions: D:N.35, D:K.36, D:L.38, D:V.40, D:T.149, I:L.24, I:Q.25, C:Q.145 Hydrogen bonds: D:N.35, D:N.35, D:D.39, D:D.39, D:T.149, D:T.149, D:G.151, C:Q.145 Water bridges: D:S.32, D:S.32, D:K.36, D:T.149, I:N.28, C:R.33, C:Q.145, C:N.148 BLA.6: 23 residues within 4Å: Chain D: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain D Hydrophobic interactions: D:L.59, D:R.78, D:A.81, D:Y.92, D:L.113, D:L.113, D:T.116, D:L.120, D:V.122, D:V.122 Hydrogen bonds: D:R.84, D:D.85 Water bridges: D:R.77, D:R.77, D:L.120 Salt bridges: D:R.77, D:R.84 BLA.7: 26 residues within 4Å: Chain E: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Chain J: R.57, I.67, Y.74, T.75, N.76, M.79 29 PLIP interactions: 25 interactions with chain E, 4 interactions with chain J Hydrophobic interactions: E:V.59, E:Y.60, E:T.66, E:K.83, E:K.83, E:Y.90, E:L.111, E:I.118, E:F.122, E:L.124, E:W.128, E:W.128, E:W.128, E:Y.129, J:Y.74 Hydrogen bonds: E:Q.73, E:A.75, E:R.86, E:D.87, E:Y.129, J:T.75 Water bridges: E:K.83, E:F.122, J:R.57 Salt bridges: E:K.83, E:K.83, E:R.86, J:R.57 pi-Cation interactions: E:R.86 BLA.8: 21 residues within 4Å: Chain E: R.33, Q.145, N.148 Chain F: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 Chain G: N.21, L.24, Q.25, N.28 24 PLIP interactions: 5 interactions with chain E, 16 interactions with chain F, 3 interactions with chain G Hydrophobic interactions: E:Q.145, F:N.35, F:K.36, F:L.38, F:V.40, F:T.149, G:L.24, G:Q.25 Hydrogen bonds: E:Q.145, F:N.35, F:N.35, F:D.39, F:D.39, F:T.149, F:T.149, F:G.151 Water bridges: E:R.33, E:Q.145, E:N.148, F:S.32, F:S.32, F:K.36, F:T.149, G:N.28 BLA.9: 23 residues within 4Å: Chain F: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain F Hydrophobic interactions: F:L.59, F:R.78, F:A.81, F:Y.92, F:L.113, F:L.113, F:T.116, F:L.120, F:V.122, F:V.122 Hydrogen bonds: F:R.84, F:D.85 Water bridges: F:R.77, F:R.77, F:L.120 Salt bridges: F:R.77, F:R.84 BLA.10: 26 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, N.76, M.79 Chain G: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 29 PLIP interactions: 25 interactions with chain G, 4 interactions with chain B Hydrophobic interactions: G:V.59, G:Y.60, G:T.66, G:K.83, G:K.83, G:Y.90, G:L.111, G:I.118, G:F.122, G:L.124, G:W.128, G:W.128, G:W.128, G:Y.129, B:Y.74 Hydrogen bonds: G:Q.73, G:A.75, G:R.86, G:D.87, G:Y.129, B:T.75 Water bridges: G:K.83, G:F.122, B:R.57 Salt bridges: G:K.83, G:K.83, G:R.86, B:R.57 pi-Cation interactions: G:R.86 BLA.11: 21 residues within 4Å: Chain E: N.21, L.24, Q.25, N.28 Chain G: R.33, Q.145, N.148 Chain H: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 23 PLIP interactions: 3 interactions with chain E, 15 interactions with chain H, 5 interactions with chain G Hydrophobic interactions: E:L.24, E:Q.25, H:N.35, H:K.36, H:L.38, H:V.40, H:T.149, G:Q.145 Water bridges: E:N.28, H:S.32, H:S.32, H:K.36, H:T.149, G:Q.145, G:N.148 Hydrogen bonds: H:N.35, H:N.35, H:D.39, H:T.149, H:T.149, H:G.151, G:R.33, G:Q.145 BLA.12: 23 residues within 4Å: Chain H: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain H Hydrophobic interactions: H:L.59, H:R.78, H:A.81, H:Y.92, H:L.113, H:L.113, H:T.116, H:L.120, H:V.122, H:V.122 Hydrogen bonds: H:R.84, H:D.85 Water bridges: H:R.77, H:R.77, H:L.120 Salt bridges: H:R.77, H:R.84 BLA.13: 26 residues within 4Å: Chain F: R.57, I.67, Y.74, T.75, N.76, M.79 Chain I: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 29 PLIP interactions: 25 interactions with chain I, 4 interactions with chain F Hydrophobic interactions: I:V.59, I:Y.60, I:T.66, I:K.83, I:K.83, I:Y.90, I:L.111, I:I.118, I:F.122, I:L.124, I:W.128, I:W.128, I:W.128, I:Y.129, F:Y.74 Hydrogen bonds: I:Q.73, I:A.75, I:R.86, I:D.87, I:Y.129, F:T.75 Water bridges: I:K.83, I:F.122, F:R.57 Salt bridges: I:K.83, I:K.83, I:R.86, F:R.57 pi-Cation interactions: I:R.86 BLA.14: 21 residues within 4Å: Chain C: N.21, L.24, Q.25, N.28 Chain I: R.33, Q.145, N.148 Chain J: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 23 PLIP interactions: 15 interactions with chain J, 5 interactions with chain I, 3 interactions with chain C Hydrophobic interactions: J:N.35, J:K.36, J:L.38, J:V.40, J:T.149, I:Q.145, C:L.24, C:Q.25 Hydrogen bonds: J:N.35, J:N.35, J:D.39, J:T.149, J:T.149, J:G.151, I:R.33, I:Q.145 Water bridges: J:S.32, J:S.32, J:K.36, J:T.149, I:Q.145, I:N.148, C:N.28 BLA.15: 23 residues within 4Å: Chain J: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain J Hydrophobic interactions: J:L.59, J:R.78, J:A.81, J:Y.92, J:L.113, J:L.113, J:T.116, J:L.120, J:V.122, J:V.122 Hydrogen bonds: J:R.84, J:D.85 Water bridges: J:R.77, J:R.77, J:L.120 Salt bridges: J:R.77, J:R.84 BLA.16: 26 residues within 4Å: Chain D: R.57, I.67, Y.74, T.75, N.76, M.79 Chain K: V.59, Y.60, T.66, P.72, Q.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 29 PLIP interactions: 25 interactions with chain K, 4 interactions with chain D Hydrophobic interactions: K:V.59, K:Y.60, K:T.66, K:K.83, K:K.83, K:Y.90, K:L.111, K:I.118, K:F.122, K:L.124, K:W.128, K:W.128, K:W.128, K:Y.129, D:Y.74 Hydrogen bonds: K:Q.73, K:A.75, K:R.86, K:D.87, K:Y.129, D:T.75 Water bridges: K:K.83, K:F.122, D:R.57 Salt bridges: K:K.83, K:K.83, K:R.86, D:R.57 pi-Cation interactions: K:R.86 BLA.17: 21 residues within 4Å: Chain A: N.21, L.24, Q.25, N.28 Chain K: R.33, Q.145, N.148 Chain L: N.35, K.36, L.38, D.39, V.40, A.142, N.143, D.144, I.148, T.149, T.150, G.151, C.153, M.157 23 PLIP interactions: 15 interactions with chain L, 5 interactions with chain K, 3 interactions with chain A Hydrophobic interactions: L:N.35, L:K.36, L:L.38, L:V.40, L:T.149, K:Q.145, A:L.24, A:Q.25 Hydrogen bonds: L:N.35, L:N.35, L:D.39, L:T.149, L:T.149, L:G.151, K:R.33, K:Q.145 Water bridges: L:S.32, L:S.32, L:K.36, L:T.149, K:Q.145, K:N.148, A:N.28 BLA.18: 23 residues within 4Å: Chain L: L.59, L.66, N.72, A.73, R.77, R.78, A.81, C.82, R.84, D.85, M.86, I.88, Y.92, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 17 PLIP interactions: 17 interactions with chain L Hydrophobic interactions: L:L.59, L:R.78, L:A.81, L:Y.92, L:L.113, L:L.113, L:T.116, L:L.120, L:V.122, L:V.122 Hydrogen bonds: L:R.84, L:D.85 Water bridges: L:R.77, L:R.77, L:L.120 Salt bridges: L:R.77, L:R.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fromme, R. et al., High resolution structure of C-Phycocyanin from Galdieria sulphuraria reveals new insights of the Phycobilisome. To be Published

Release Date

2011-04-13

Peptides

C-phycocyanin alpha chain: ACEGIK
C-phycocyanin beta chain: 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

C-phycocyanin alpha chain

C-phycocyanin beta chain

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