SMTL ID : 1lia.3 (5 other biounits)

CRYSTAL STRUCTURE OF R-PHYCOERYTHRIN FROM POLYSIPHONIA AT 2.8 A RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-6-6-mer

Ligands

24 x CYC: PHYCOCYANOBILIN(Covalent)

CYC.1: 22 residues within 4Å: Chain A: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, W.108, L.120, L.122, P.123, A.126, Y.127 Chain F: I.60, I.67, Y.74, T.75, N.76, M.79 Ligand excluded by PLIP CYC.2: 10 residues within 4Å: Chain A: L.44, V.51, E.54, R.137, L.138, C.139, R.142, D.143, M.144, F.152 Ligand excluded by PLIP CYC.3: 20 residues within 4Å: Chain B: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, C.109, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP CYC.4: 18 residues within 4Å: Chain A: L.24, Q.28 Chain B: N.35, K.36, L.38, D.39, A.40, Y.43, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Chain C: R.33, Q.147 Ligand excluded by PLIP CYC.6: 24 residues within 4Å: Chain C: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, Y.89, L.92, W.108, Y.117, L.120, L.122, P.123, A.126, Y.127 Chain L: I.67, Y.74, T.75, N.76, M.79 Ligand excluded by PLIP CYC.7: 13 residues within 4Å: Chain C: K.43, L.44, N.47, A.50, V.51, E.54, T.134, R.137, L.138, C.139, R.142, D.143, M.144 Ligand excluded by PLIP CYC.9: 18 residues within 4Å: Chain A: R.33, Q.147 Chain C: L.24, Q.25, Q.28 Chain D: N.32, N.35, K.36, L.38, D.39, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Ligand excluded by PLIP CYC.10: 19 residues within 4Å: Chain D: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP CYC.11: 22 residues within 4Å: Chain E: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, W.108, L.120, L.122, P.123, A.126, Y.127 Chain J: I.60, I.67, Y.74, T.75, N.76, M.79 Ligand excluded by PLIP CYC.12: 10 residues within 4Å: Chain E: L.44, V.51, E.54, R.137, L.138, C.139, R.142, D.143, M.144, F.152 Ligand excluded by PLIP CYC.13: 20 residues within 4Å: Chain F: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, C.109, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP CYC.14: 18 residues within 4Å: Chain E: L.24, Q.28 Chain F: N.35, K.36, L.38, D.39, A.40, Y.43, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Chain G: R.33, Q.147 Ligand excluded by PLIP CYC.16: 24 residues within 4Å: Chain D: I.67, Y.74, T.75, N.76, M.79 Chain G: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, Y.89, L.92, W.108, Y.117, L.120, L.122, P.123, A.126, Y.127 Ligand excluded by PLIP CYC.17: 13 residues within 4Å: Chain G: K.43, L.44, N.47, A.50, V.51, E.54, T.134, R.137, L.138, C.139, R.142, D.143, M.144 Ligand excluded by PLIP CYC.19: 18 residues within 4Å: Chain E: R.33, Q.147 Chain G: L.24, Q.25, Q.28 Chain H: N.32, N.35, K.36, L.38, D.39, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Ligand excluded by PLIP CYC.20: 19 residues within 4Å: Chain H: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP CYC.21: 22 residues within 4Å: Chain B: I.60, I.67, Y.74, T.75, N.76, M.79 Chain I: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, W.108, L.120, L.122, P.123, A.126, Y.127 Ligand excluded by PLIP CYC.22: 10 residues within 4Å: Chain I: L.44, V.51, E.54, R.137, L.138, C.139, R.142, D.143, M.144, F.152 Ligand excluded by PLIP CYC.23: 20 residues within 4Å: Chain J: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, C.109, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP CYC.24: 18 residues within 4Å: Chain I: L.24, Q.28 Chain J: N.35, K.36, L.38, D.39, A.40, Y.43, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Chain K: R.33, Q.147 Ligand excluded by PLIP CYC.26: 24 residues within 4Å: Chain H: I.67, Y.74, T.75, N.76, M.79 Chain K: F.60, N.66, A.72, G.73, K.78, K.81, C.82, R.84, D.85, H.88, Y.89, L.92, W.108, Y.117, L.120, L.122, P.123, A.126, Y.127 Ligand excluded by PLIP CYC.27: 13 residues within 4Å: Chain K: K.43, L.44, N.47, A.50, V.51, E.54, T.134, R.137, L.138, C.139, R.142, D.143, M.144 Ligand excluded by PLIP CYC.29: 18 residues within 4Å: Chain I: R.33, Q.147 Chain K: L.24, Q.25, Q.28 Chain L: N.32, N.35, K.36, L.38, D.39, I.142, S.143, N.144, V.153, I.154, E.155, G.156, C.158 Ligand excluded by PLIP CYC.30: 19 residues within 4Å: Chain L: M.59, L.66, N.72, C.73, R.77, R.78, A.81, C.82, R.84, D.85, I.88, R.108, L.113, Y.117, L.120, V.122, P.123, S.126, T.127 Ligand excluded by PLIP

6 x PUB: PHYCOUROBILIN(Covalent)

PUB.5: 15 residues within 4Å: Chain B: C.50, D.54, S.57, G.58, C.61, E.62, I.133, A.136, A.137, C.140, F.141, A.146, S.147, Q.148, R.149 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.133, B:I.133, B:A.137, B:F.141, B:F.141, B:R.149 Hydrogen bonds: B:D.54, B:D.54, B:S.147, B:Q.148, B:R.149 PUB.8: 17 residues within 4Å: Chain D: C.50, D.54, S.57, G.58, C.61, E.62, R.129, I.133, A.136, A.137, C.140, F.141, T.145, A.146, S.147, Q.148, R.149 16 PLIP interactions: 16 interactions with chain D Hydrophobic interactions: D:I.133, D:A.136, D:A.137, D:F.141, D:F.141, D:A.146, D:Q.148 Hydrogen bonds: D:D.54, D:E.62, D:T.145, D:S.147, D:S.147, D:Q.148, D:Q.148, D:R.149 Salt bridges: D:R.129 PUB.15: 15 residues within 4Å: Chain F: C.50, D.54, S.57, G.58, C.61, E.62, I.133, A.136, A.137, C.140, F.141, A.146, S.147, Q.148, R.149 11 PLIP interactions: 11 interactions with chain F Hydrophobic interactions: F:I.133, F:I.133, F:A.137, F:F.141, F:F.141, F:R.149 Hydrogen bonds: F:D.54, F:D.54, F:S.147, F:Q.148, F:R.149 PUB.18: 17 residues within 4Å: Chain H: C.50, D.54, S.57, G.58, C.61, E.62, R.129, I.133, A.136, A.137, C.140, F.141, T.145, A.146, S.147, Q.148, R.149 16 PLIP interactions: 16 interactions with chain H Hydrophobic interactions: H:I.133, H:A.136, H:A.137, H:F.141, H:F.141, H:A.146, H:Q.148 Hydrogen bonds: H:D.54, H:E.62, H:T.145, H:S.147, H:S.147, H:Q.148, H:Q.148, H:R.149 Salt bridges: H:R.129 PUB.25: 15 residues within 4Å: Chain J: C.50, D.54, S.57, G.58, C.61, E.62, I.133, A.136, A.137, C.140, F.141, A.146, S.147, Q.148, R.149 11 PLIP interactions: 11 interactions with chain J Hydrophobic interactions: J:I.133, J:I.133, J:A.137, J:F.141, J:F.141, J:R.149 Hydrogen bonds: J:D.54, J:D.54, J:S.147, J:Q.148, J:R.149 PUB.28: 17 residues within 4Å: Chain L: C.50, D.54, S.57, G.58, C.61, E.62, R.129, I.133, A.136, A.137, C.140, F.141, T.145, A.146, S.147, Q.148, R.149 16 PLIP interactions: 16 interactions with chain L Hydrophobic interactions: L:I.133, L:A.136, L:A.137, L:F.141, L:F.141, L:A.146, L:Q.148 Hydrogen bonds: L:D.54, L:E.62, L:T.145, L:S.147, L:S.147, L:Q.148, L:Q.148, L:R.149 Salt bridges: L:R.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, W.R. et al., Crystal structure of R-phycoerythrin from Polysiphonia urceolata at 2.8 A resolution. J.Mol.Biol. (1996)

Release Date

1997-07-29

Peptides

R-PHYCOERYTHRIN: ACEGIK
R-PHYCOERYTHRIN: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
K

E
A

G
K

I
A

K
K

B
B

D
L

F
B

H
L

J
B

L
L

R-PHYCOERYTHRIN

R-PHYCOERYTHRIN

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