SMTL ID : 5duo.1 (1 other biounit)

Crystal structure of native translocator protein 18kDa (TSPO) from Rhodobacter sphaeroides (A139T Mutant) in C2 space group

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

11 x OLC: (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate(Non-covalent)(Non-functional Binders)

OLC.1: 10 residues within 4Å: Chain A: M.1, N.2, M.3, S.52, L.53, L.56, L.59, M.62, R.63 Ligands: OLC.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.53, A:L.56, A:L.56, A:L.59, A:L.59 Hydrogen bonds: A:R.63 Salt bridges: A:R.63 OLC.2: 6 residues within 4Å: Chain A: F.76 Chain B: A.6, T.10, A.13, T.20 Ligands: OLC.11 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.13 OLC.3: 11 residues within 4Å: Chain A: A.6, L.9, T.10, L.12, A.13, C.15, A.19, Y.54 Chain B: F.76, W.116 Ligands: PP9.8 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.9, A:L.12, A:A.13, A:A.19, A:Y.54, B:F.76 OLC.4: 5 residues within 4Å: Chain A: R.63, W.124, V.130, P.131 Ligands: OLC.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.130 Hydrogen bonds: A:R.63 Water bridges: A:R.63 Salt bridges: A:R.63 OLC.5: 6 residues within 4Å: Chain A: M.105, W.108, L.109, T.137, T.140, G.141 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.108, A:W.108, A:W.108, A:L.109 OLC.9: 5 residues within 4Å: Chain B: W.44, V.45, L.48, S.52 Ligands: OLC.12 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.44, B:W.44, B:V.45, B:L.48 OLC.10: 6 residues within 4Å: Chain B: W.108, M.115, W.116, F.119, Q.120, T.123 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.119, B:F.119 Hydrogen bonds: B:Q.120, B:T.123 OLC.11: 8 residues within 4Å: Chain B: D.4, W.5, A.6, L.9, L.12, A.13, G.16 Ligands: OLC.2 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.9, B:L.9, B:L.12, B:A.13 Hydrogen bonds: B:D.4, B:W.5, B:A.6 OLC.12: 1 residues within 4Å: Ligands: OLC.9 No protein-ligand interaction detected (PLIP) OLC.13: 3 residues within 4Å: Chain B: L.59, R.63, W.124 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.124 Salt bridges: B:R.63 OLC.14: 7 residues within 4Å: Chain B: L.101, M.105, L.109, F.144, M.147, R.148, W.151 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.101, B:L.109, B:F.144 Hydrogen bonds: B:W.151

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.6: 3 residues within 4Å: Chain A: D.4, W.5, A.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.4, A:W.5, A:A.6 FMT.7: 2 residues within 4Å: Chain A: M.3, W.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.5

1 x PP9: PROTOPORPHYRIN IX(Covalent)

PP9.8: 19 residues within 4Å: Chain A: P.18, A.19, T.21, G.22, A.23, L.25, R.43, F.46, P.47, W.50, T.51, Y.54, N.84, W.87, T.88, F.92, W.135, T.139 Ligands: OLC.3 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:A.23, A:L.25, A:L.25, A:F.46, A:F.46, A:F.46, A:W.50, A:W.50, A:W.50, A:Y.54, A:W.87, A:F.92, A:F.92 Hydrogen bonds: A:Y.54, A:N.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, F. et al., Response to Comment on "Crystal structures of translocator protein (TSPO) and mutant mimic of a human polymorphism". Science (2015)

Release Date

2015-11-11

Peptides

Tryptophan-rich sensory protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Tryptophan-rich sensory protein

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