SMTL ID : 7d6w.1 (1 other biounit)

Crystal structure of Phycocyanin from Synechococcus sp. R42DM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

hetero-3-3-mer

Ligands

9 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 26 residues within 4Å: Chain A: V.59, T.66, N.72, N.73, F.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.91, I.94, 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 25 PLIP interactions: 20 interactions with chain A, 5 interactions with chain D Hydrophobic interactions: A:V.59, A:T.66, A:K.83, A:K.83, A:Y.90, A:Y.91, A:I.94, A:I.118, A:F.122, A:F.122, 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, D:N.76 Salt bridges: A:K.83, A:R.86, D:R.57 pi-Cation interactions: A:R.86 Water bridges: D:R.57 CYC.2: 16 residues within 4Å: Chain A: L.24, F.28 Chain B: N.35, K.36, D.39, T.40, N.42, R.43, V.142, S.143, D.144, I.148, T.149, Q.150, G.151, C.153 11 PLIP interactions: 10 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:K.36, B:V.142, B:I.148, B:T.149, A:L.24 Hydrogen bonds: B:N.35, B:D.39, B:T.149, B:T.149, B:G.151 Water bridges: B:T.149 CYC.3: 22 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, 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: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, B:P.123 Hydrogen bonds: B:R.84, B:R.84, B:D.85 Water bridges: B:R.77 Salt bridges: B:R.77, B:R.84 pi-Cation interactions: B:R.84 CYC.4: 26 residues within 4Å: Chain C: V.59, T.66, N.72, N.73, F.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.91, I.94, 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 24 PLIP interactions: 20 interactions with chain C, 4 interactions with chain F Hydrophobic interactions: C:V.59, C:T.66, C:K.83, C:K.83, C:Y.90, C:Y.91, C:I.94, C:I.118, C:F.122, C:F.122, C:W.128, C:Y.129, F:Y.74 Hydrogen bonds: C:N.73, C:A.75, C:R.86, C:D.87, C:Y.129, F:T.75 Salt bridges: C:K.83, C:R.86, F:R.57 pi-Cation interactions: C:R.86 Water bridges: F:R.57 CYC.5: 17 residues within 4Å: Chain C: F.28 Chain D: N.35, K.36, I.38, D.39, T.40, N.42, R.43, V.142, S.143, D.144, R.145, I.148, T.149, Q.150, G.151, C.153 12 PLIP interactions: 11 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:I.38, D:V.142, D:I.148, D:T.149, C:F.28 Hydrogen bonds: D:N.35, D:D.39, D:D.39, D:R.145, D:T.149, D:G.151 Water bridges: D:T.149 CYC.6: 21 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, R.108, C.109, L.113, Y.117, L.120, V.122, P.123, S.126, V.127 12 PLIP interactions: 12 interactions with chain D Hydrophobic interactions: D:R.78, D:A.81, D:Y.92, D:L.120, D:V.122, D:V.122 Hydrogen bonds: D:R.84, D:D.85 Water bridges: D:R.77, D:R.84 Salt bridges: D:R.77, D:R.84 CYC.7: 27 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, N.76, M.79 Chain E: V.59, Y.60, T.66, N.72, N.73, F.74, A.75, G.80, K.83, C.84, R.86, D.87, Y.90, Y.91, I.94, Y.110, I.118, F.122, L.124, W.128, Y.129 27 PLIP interactions: 22 interactions with chain E, 5 interactions with chain B Hydrophobic interactions: E:V.59, E:Y.60, E:T.66, E:A.75, E:K.83, E:K.83, E:Y.90, E:Y.91, E:I.94, E:I.118, E:F.122, E:F.122, E:L.124, E:W.128, E:Y.129, B:Y.74 Hydrogen bonds: E:N.73, E:A.75, E:R.86, E:D.87, E:Y.129, B:T.75, B:N.76 Salt bridges: E:K.83, E:R.86, B:R.57 Water bridges: B:R.57 CYC.8: 17 residues within 4Å: Chain E: F.28 Chain F: N.35, K.36, I.38, D.39, T.40, N.42, R.43, V.142, S.143, D.144, R.145, I.148, T.149, Q.150, G.151, C.153 11 PLIP interactions: 10 interactions with chain F, 1 interactions with chain E Hydrophobic interactions: F:I.38, F:V.142, F:T.149, E:F.28 Hydrogen bonds: F:N.35, F:D.39, F:D.39, F:R.145, F:T.149, F:G.151 Water bridges: F:T.149 CYC.9: 22 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, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 11 PLIP interactions: 11 interactions with chain F Hydrophobic interactions: F:R.78, F:A.81, F:Y.92, F:T.116, F:V.122, F:V.122 Hydrogen bonds: F:R.84, F:D.85 Water bridges: F:R.84 Salt bridges: F:R.77, F:R.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, S.N. et al., Crystal structure of Synechococcus phycocyanin: implications of light-harvesting and antioxidant properties. 3 Biotech (2023)

Release Date

2021-10-06

Peptides

Phycocyanin alpha subunit: ACE
Phycocyanin beta subunit: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
G

E
K

B
B

D
H

F
L

Phycocyanin alpha subunit

Phycocyanin beta subunit

Related Entries With Identical Sequence