SMTL ID : 8xf2.1

Crystal structure of the reassembled C-phycocyanin hexamer from Thermoleptolyngbya sp. O-77

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

hetero-6-6-mer

Ligands

18 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 28 residues within 4Å: Chain A: V.59, Y.60, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, I.94, 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 Ligand excluded by PLIP 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 Ligand excluded by PLIP CYC.4: 21 residues within 4Å: Chain A: N.21, L.24, Q.25, N.28 Chain B: K.32, S.35, K.36, L.38, D.39, R.43, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Chain C: R.33, Q.145, N.148 Ligand excluded by PLIP CYC.5: 29 residues within 4Å: Chain C: V.59, Y.60, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, Y.91, I.94, 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 Ligand excluded by PLIP CYC.7: 22 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, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.8: 20 residues within 4Å: Chain A: R.33, Q.145, N.148 Chain C: N.21, L.24, Q.25, N.28 Chain D: S.35, K.36, L.38, D.39, R.43, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Ligand excluded by PLIP CYC.10: 27 residues within 4Å: Chain B: R.57, I.67, Y.74, T.75, N.76, M.79 Chain E: V.59, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, I.94, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Ligand excluded by PLIP CYC.13: 21 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, Y.117, L.120, V.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.14: 21 residues within 4Å: Chain E: N.21, L.24, Q.25, N.28 Chain F: K.32, S.35, K.36, L.38, D.39, R.43, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Chain G: R.33, Q.145, N.148 Ligand excluded by PLIP CYC.15: 27 residues within 4Å: Chain G: V.59, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, I.94, 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 Ligand excluded by PLIP CYC.16: 22 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, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.17: 18 residues within 4Å: Chain E: R.33, Q.145 Chain G: N.21, L.24, Q.25, N.28 Chain H: S.35, K.36, L.38, D.39, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Ligand excluded by PLIP CYC.18: 27 residues within 4Å: Chain D: R.57, I.67, Y.74, T.75, N.76, M.79 Chain I: V.59, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, I.94, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Ligand excluded by PLIP CYC.19: 21 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, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.20: 19 residues within 4Å: Chain I: N.21, L.24, Q.25, N.28 Chain J: S.35, K.36, L.38, D.39, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Chain K: R.33, Q.145, N.148 Ligand excluded by PLIP CYC.22: 28 residues within 4Å: Chain F: R.57, I.67, Y.74, T.75, N.76, M.79 Chain K: V.59, T.66, A.72, N.73, F.74, A.75, R.79, G.80, K.83, C.84, R.86, D.87, Y.90, Y.91, I.94, Y.110, L.111, I.118, F.122, L.124, W.128, Y.129 Ligand excluded by PLIP CYC.23: 21 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, R.108, C.109, L.113, T.116, Y.117, L.120, V.122, P.123, S.126, V.127 Ligand excluded by PLIP CYC.24: 20 residues within 4Å: Chain I: R.33, Q.145, N.148 Chain K: N.21, L.24, Q.25, N.28 Chain L: K.32, S.35, K.36, L.38, D.39, V.142, N.143, D.144, I.148, T.149, K.150, G.151, C.153 Ligand excluded by PLIP

3 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain A: E.117 Chain L: E.87 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.117 NA.9: 1 residues within 4Å: Chain I: E.117 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.162 NA.11: 3 residues within 4Å: Chain B: E.87 Chain C: S.162 Chain E: E.117 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.87 Water bridges: B:E.87

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.6: 3 residues within 4Å: Chain B: N.47 Chain C: K.137, D.155 8 PLIP interactions: 4 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:D.155, B:N.47 Water bridges: C:K.137, C:N.151, B:R.43, B:R.43, B:R.43 Salt bridges: C:K.137 PO4.12: 5 residues within 4Å: Chain C: T.121 Chain E: N.159, S.162 Chain H: S.49, E.87 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain H, 1 interactions with chain E Hydrogen bonds: C:T.121 Water bridges: C:T.121, H:S.49, E:N.159 PO4.21: 5 residues within 4Å: Chain G: E.117 Chain J: S.49, E.87 Chain K: N.159, S.162 4 PLIP interactions: 1 interactions with chain G, 1 interactions with chain K, 2 interactions with chain J Hydrogen bonds: G:R.120, J:E.87, J:E.87 Water bridges: K:A.160

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nguyen, H.K. et al., Disassembly and reassembly of the non-conventional thermophilic C-phycocyanin. J.Biosci.Bioeng. (2024)

Release Date

2024-05-22

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

I
I

K
K

B
B

D
D

F
F

H
H

J
J

L
L

C-phycocyanin alpha chain

C-phycocyanin beta chain

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