SMTL ID : 5tuw.1

Crystal structure of Orange Carotenoid Protein with partial loss of 3'OH Echinenone chromophore

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-hexamer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 9 residues within 4Å: Chain A: A.54, A.55, P.56, G.57, N.104, E.174, N.247, P.276, W.277 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.55, A:G.57, A:N.247 GOL.4: 8 residues within 4Å: Chain C: A.54, A.55, P.56, G.57, N.104, E.174, P.276, W.277 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.174 GOL.5: 7 residues within 4Å: Chain C: W.41, F.42, I.125, P.126, A.127, G.128, Y.129 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:W.41, C:G.128 GOL.8: 8 residues within 4Å: Chain E: A.54, A.55, P.56, G.57, N.104, E.174, P.276, W.277 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:A.54, E:E.174

6 x EQ3: (3'R)-3'-hydroxy-beta,beta-caroten-4-one(Non-covalent)

EQ3.2: 35 residues within 4Å: Chain A: L.37, A.38, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:L.37, A:I.40, A:W.41, A:W.41, A:Y.44, A:I.53, A:L.107, A:W.110, A:W.110, A:R.155, A:V.158, A:L.205, A:P.225, A:F.240, A:F.240, A:L.250, A:V.273, A:T.275, A:W.277, A:F.278, A:I.303 Hydrogen bonds: A:L.37, A:Y.201 EQ3.3: 34 residues within 4Å: Chain B: L.37, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 22 PLIP interactions: 22 interactions with chain B Hydrophobic interactions: B:L.37, B:I.40, B:W.41, B:W.41, B:Y.44, B:I.53, B:L.107, B:W.110, B:W.110, B:W.110, B:R.155, B:V.158, B:L.205, B:P.225, B:F.240, B:F.240, B:L.248, B:V.273, B:W.277, B:F.278, B:I.303 Hydrogen bonds: B:L.37 EQ3.6: 34 residues within 4Å: Chain C: L.37, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 23 PLIP interactions: 23 interactions with chain C Hydrophobic interactions: C:L.37, C:I.40, C:W.41, C:Y.44, C:Y.44, C:L.107, C:W.110, C:W.110, C:W.110, C:R.155, C:V.158, C:L.205, C:P.225, C:F.240, C:F.240, C:L.248, C:L.248, C:V.273, C:W.277, C:F.278, C:I.303, C:I.303 Hydrogen bonds: C:L.37 EQ3.7: 34 residues within 4Å: Chain D: L.37, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 20 PLIP interactions: 20 interactions with chain D Hydrophobic interactions: D:L.37, D:I.40, D:W.41, D:W.41, D:Y.44, D:L.107, D:W.110, D:W.110, D:V.158, D:L.205, D:P.225, D:F.240, D:F.240, D:V.273, D:W.277, D:F.278, D:I.303, D:I.303 Hydrogen bonds: D:L.37, D:Y.201 EQ3.9: 34 residues within 4Å: Chain E: L.37, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 20 PLIP interactions: 20 interactions with chain E Hydrophobic interactions: E:L.37, E:I.40, E:W.41, E:Y.44, E:L.107, E:L.107, E:W.110, E:W.110, E:W.110, E:I.151, E:V.158, E:L.205, E:P.225, E:F.240, E:V.273, E:W.277, E:F.278, E:I.303 Hydrogen bonds: E:L.37, E:Y.201 EQ3.10: 35 residues within 4Å: Chain F: L.37, A.38, I.40, W.41, Y.44, I.53, L.107, W.110, Y.111, L.113, G.114, M.117, I.151, T.152, L.154, R.155, V.158, Y.201, L.205, L.223, P.225, P.226, F.240, F.241, C.245, L.248, L.250, V.273, T.275, W.277, F.278, M.284, I.286, W.288, I.303 23 PLIP interactions: 23 interactions with chain F Hydrophobic interactions: F:L.37, F:I.40, F:W.41, F:W.41, F:Y.44, F:I.53, F:L.107, F:W.110, F:W.110, F:W.110, F:R.155, F:V.158, F:L.205, F:F.240, F:F.240, F:L.248, F:L.250, F:V.273, F:T.275, F:W.277, F:F.278, F:I.303 Hydrogen bonds: F:L.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bandara, S. et al., Photoactivation mechanism of a carotenoid-based photoreceptor. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-06-07

Peptides

Orange carotenoid-binding protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Orange carotenoid-binding protein

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