SMTL ID : 6mqx.2 (1 other biounit)

Crystal Structure of All-trans Retinal-Bound R111K:Y134F:T54V:R132Q:P39Y:R59Y:L121E Human Cellular Retinoic Acid Binding Protein II Irradiated with 400 nm Laser (30 seconds) and Subsequently Dark Adapted (25 minutes) at 2.0 Angstrom Resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.01 Å

Oligo State

homo-dimer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: T.49, N.64, E.69 Ligands: GOL.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.69, A:E.69 Water bridges: A:K.66 GOL.2: 6 residues within 4Å: Chain A: E.62, I.63, N.64, E.72, E.73 Ligands: GOL.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.64, A:N.64 GOL.4: 4 residues within 4Å: Chain B: T.49, N.64, E.69 Ligands: GOL.5 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.69 Water bridges: B:K.66 GOL.5: 6 residues within 4Å: Chain B: E.62, I.63, N.64, E.72, E.73 Ligands: GOL.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.64, B:N.64

2 x RET: RETINAL(Covalent)

RET.3: 13 residues within 4Å: Chain A: F.15, A.35, A.36, Y.39, V.54, T.56, I.63, V.76, W.109, K.111, E.121 Chain B: M.27, I.31 13 PLIP interactions: 12 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.15, A:A.35, A:A.36, A:Y.39, A:Y.39, A:V.54, A:T.56, A:I.63, A:V.76, A:W.109, A:W.109, A:K.111, B:I.31 RET.6: 13 residues within 4Å: Chain A: M.27, I.31 Chain B: F.15, A.35, A.36, Y.39, V.54, T.56, I.63, V.76, W.109, K.111, E.121 13 PLIP interactions: 12 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.15, B:A.35, B:A.36, B:Y.39, B:Y.39, B:V.54, B:T.56, B:I.63, B:V.76, B:W.109, B:W.109, B:K.111, A:I.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ghanbarpour, A. et al., Mimicking Microbial Rhodopsin Isomerization in a Single Crystal. J. Am. Chem. Soc. (2019)

Release Date

2019-01-09

Peptides

Cellular retinoic acid-binding protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cellular retinoic acid-binding protein 2

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