SMTL ID : 4yjj.1 (1 other biounit)

Crystal structure of Phycocyanin from marine cyanobacterium Phormidium rubidum sp. A09DM

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-oligomer

Ligands

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

CYC.1: 27 residues within 4Å: Chain A: V.59, Y.60, T.66, P.72, N.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.91, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Chain D: R.57, I.67, T.75, S.76, M.79 18 PLIP interactions: 16 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:V.59, A:Y.60, A:K.83, A:I.88, A:Y.90, A:Y.91, A:L.111, A:I.118, A:F.122, A:Y.129 Hydrogen bonds: A:N.73, A:A.75, A:R.86, D:T.75 Salt bridges: A:K.83, A:R.86, D:R.57 pi-Cation interactions: A:R.86 CYC.2: 19 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, L.113, Y.117, L.120, T.122, S.126, V.127 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.66, B:A.81, B:I.88, B:I.88, B:Y.92, B:L.113, B:L.113, B:L.120, B:T.122, B:V.127 Hydrogen bonds: B:R.77, B:R.84, B:T.122 Salt bridges: B:R.77, B:R.84 pi-Cation interactions: B:R.84 CYC.3: 16 residues within 4Å: Chain A: S.21, V.24, F.28 Chain B: N.35, K.36, D.39, V.40, N.42, A.142, G.143, D.144, I.148, T.149, P.150, G.151, C.153 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:D.39, B:V.40, B:T.149, A:V.24, A:F.28, A:F.28 Hydrogen bonds: B:N.35, B:D.39, B:T.149, B:T.149, B:G.151 pi-Stacking: A:F.28 CYC.4: 27 residues within 4Å: Chain C: V.59, Y.60, T.66, P.72, N.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.91, Y.110, L.111, I.118, 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:Y.60, C:K.83, C:I.88, C:Y.90, C:Y.91, C:L.111, C:I.118, C:F.122, C:Y.129 Hydrogen bonds: C:N.73, C:A.75, C:R.86, F:T.75 Salt bridges: C:K.83, C:R.86, F:R.57 pi-Cation interactions: C:R.86 CYC.5: 19 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, L.113, Y.117, L.120, T.122, S.126, V.127 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:L.66, D:A.81, D:I.88, D:I.88, D:Y.92, D:L.113, D:L.113, D:L.120, D:T.122, D:V.127 Hydrogen bonds: D:R.77, D:R.84, D:T.122 Salt bridges: D:R.77, D:R.84 pi-Cation interactions: D:R.84 CYC.6: 16 residues within 4Å: Chain C: S.21, V.24, F.28 Chain D: N.35, K.36, D.39, V.40, N.42, A.142, G.143, D.144, I.148, T.149, P.150, G.151, C.153 12 PLIP interactions: 8 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:D.39, D:V.40, D:T.149, C:V.24, C:F.28, C:F.28 Hydrogen bonds: D:N.35, D:D.39, D:T.149, D:T.149, D:G.151 pi-Stacking: C:F.28 CYC.7: 27 residues within 4Å: Chain B: R.57, I.67, T.75, S.76, M.79 Chain E: V.59, Y.60, T.66, P.72, N.73, Y.74, A.75, G.80, K.83, C.84, R.86, D.87, I.88, Y.90, Y.91, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 18 PLIP interactions: 16 interactions with chain E, 2 interactions with chain B Hydrophobic interactions: E:V.59, E:Y.60, E:K.83, E:I.88, E:Y.90, E:Y.91, E:L.111, E:I.118, E:F.122, E:Y.129 Hydrogen bonds: E:N.73, E:A.75, E:R.86, B:T.75 Salt bridges: E:K.83, E:R.86, B:R.57 pi-Cation interactions: E:R.86 CYC.8: 19 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, L.113, Y.117, L.120, T.122, S.126, V.127 16 PLIP interactions: 16 interactions with chain F Hydrophobic interactions: F:L.66, F:A.81, F:I.88, F:I.88, F:Y.92, F:L.113, F:L.113, F:L.120, F:T.122, F:V.127 Hydrogen bonds: F:R.77, F:R.84, F:T.122 Salt bridges: F:R.77, F:R.84 pi-Cation interactions: F:R.84 CYC.9: 16 residues within 4Å: Chain E: S.21, V.24, F.28 Chain F: N.35, K.36, D.39, V.40, N.42, A.142, G.143, D.144, I.148, T.149, P.150, G.151, C.153 12 PLIP interactions: 8 interactions with chain F, 4 interactions with chain E Hydrophobic interactions: F:D.39, F:V.40, F:T.149, E:V.24, E:F.28, E:F.28 Hydrogen bonds: F:N.35, F:D.39, F:T.149, F:T.149, F:G.151 pi-Stacking: E:F.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gupta, G.D. et al., Crystal structure of Phycocyanin from marine cyanobacterium Phormidium rubidum sp. A09DM. To Be Published

Release Date

2016-03-09

Peptides

Alpha Subunit of Cyanobacterial Phycocyanine protein: ACE
Beta Subunit of Cyanobacterial Phycocyanine protein: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

B
B

D
B

F
B

Alpha Subunit of Cyanobacterial Phycocyanine protein

Beta Subunit of Cyanobacterial Phycocyanine protein

Related Entries With Identical Sequence