SMTL ID : 6fmr.1

IMISX-EP of Se-PepTSt

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

14 x 78M: (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE(Non-covalent)

78M.1: 8 residues within 4Å: Chain A: L.369, A.372, I.373, A.376, V.451, S.455 Ligands: 78M.10, 78M.11 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.372, A:I.373, A:I.373, A:A.376 78M.2: 8 residues within 4Å: Chain A: V.77, I.81, I.82, L.212, P.214, V.217, L.220, V.224 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.77, A:I.81, A:I.82, A:L.220, A:V.224 78M.3: 9 residues within 4Å: Chain A: I.100, A.103, A.173, G.174, H.176, V.177, S.180, I.184, F.187 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.100, A:H.176, A:I.184, A:F.187 Hydrogen bonds: A:A.173, A:H.176, A:V.177 Water bridges: A:Y.175 78M.4: 6 residues within 4Å: Chain A: L.370, S.385, L.387, W.388, A.394 Ligands: 78M.5 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.370, A:W.388, A:A.394 Hydrogen bonds: A:S.385 78M.5: 5 residues within 4Å: Chain A: L.370, Y.378, W.388, L.398 Ligands: 78M.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.370, A:L.398 Hydrogen bonds: A:Y.378 78M.6: 7 residues within 4Å: Chain A: R.85, P.86, F.89, W.90, Y.193, Y.194, K.198 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.89, A:W.90, A:Y.194 Hydrogen bonds: A:R.85 78M.7: 10 residues within 4Å: Chain A: L.49, I.59, I.62, A.108, L.111, F.112, I.115, I.116, L.246, L.253 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.59, A:I.62, A:I.115, A:I.116, A:L.253 Water bridges: A:F.112 78M.9: 5 residues within 4Å: Chain A: M.238, W.243, S.245, A.248, I.255 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.245, A:S.245 78M.10: 3 residues within 4Å: Chain A: A.376, L.377 Ligands: 78M.1 No protein-ligand interaction detected (PLIP) 78M.11: 5 residues within 4Å: Chain A: L.366, L.369, L.459, V.462 Ligands: 78M.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.366, A:L.369, A:L.459, A:V.462 78M.12: 5 residues within 4Å: Chain A: I.290, L.294, F.457 Ligands: 78M.13, 78M.15 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.290, A:L.294 78M.13: 4 residues within 4Å: Chain A: L.437, Q.440, L.441 Ligands: 78M.12 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.437 78M.14: 6 residues within 4Å: Chain A: N.251, T.254, I.255, I.258, A.259, Q.440 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.255, A:A.259 Hydrogen bonds: A:N.251, A:Q.440 78M.15: 11 residues within 4Å: Chain A: L.294, I.298, Q.301, L.441, L.444, A.452, Y.456, F.457, G.460, S.461 Ligands: 78M.12 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.294, A:I.298, A:Y.456, A:F.457

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

PO4.8: 4 residues within 4Å: Chain A: D.48, G.107, A.108, S.109 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.48, A:G.107, A:A.108, A:S.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, C.Y. et al., In situ serial crystallography for rapid de novo membrane protein structure determination. Commun Biol (2018)

Release Date

2018-08-29

Peptides

Di-or tripeptide:H+ symporter: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Di-or tripeptide:H+ symporter

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