SMTL ID : 5d6k.1

PepT - CIM

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

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

PO4.1: 5 residues within 4Å: Chain A: D.48, F.106, G.107, A.108, S.109 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.107, A:A.108, A:S.109, A:S.109

8 x 97M: (2R)-2,3-dihydroxypropyl (9Z)-hexadec-9-enoate(Non-covalent)

97M.2: 9 residues within 4Å: Chain A: Y.335, L.370, Y.378, S.385, L.387, W.388, G.391, A.394 Ligands: 97N.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.370, A:W.388, A:A.394 Hydrogen bonds: A:S.385, A:S.385 97M.3: 10 residues within 4Å: Chain A: R.85, P.86, F.89, F.187, L.191, Y.193, Y.194, G.197, K.198, L.206 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.89, A:F.89, A:F.187, A:L.191, A:Y.194, A:Y.194 Hydrogen bonds: A:R.85, A:Y.193, A:G.197 97M.5: 10 residues within 4Å: Chain A: L.366, L.369, L.370, A.372, I.373, A.376, V.451, S.455 Ligands: 97N.8, 97M.10 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.369, A:L.369, A:L.370, A:A.372, A:I.373 97M.6: 9 residues within 4Å: Chain A: M.238, W.243, S.245, A.248, N.251, L.252, I.255, V.256, A.259 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.252, A:I.255, A:I.255, A:V.256, A:A.259 Hydrogen bonds: A:N.251 97M.7: 6 residues within 4Å: Chain A: I.82, L.212, P.214, V.217, L.220, V.224 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.82, A:V.217, A:L.220, A:V.224 97M.9: 3 residues within 4Å: Chain A: V.469, F.470, K.473 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.469, A:F.470 97M.10: 5 residues within 4Å: Chain A: A.452, Y.456, L.459 Ligands: 97M.5, 97N.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.456, A:L.459 97M.11: 8 residues within 4Å: Chain A: M.96, A.103, A.173, H.176, V.177, S.180, I.184, F.187 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.177, A:I.184, A:F.187

2 x 97N: (2S)-2,3-dihydroxypropyl (9Z)-hexadec-9-enoate(Non-functional Binders)(Non-covalent)

97N.4: 1 residues within 4Å: Ligands: 97M.2 No protein-ligand interaction detected (PLIP) 97N.8: 5 residues within 4Å: Chain A: I.373, A.376, L.377 Ligands: 97M.5, 97M.10 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.373, A:A.376

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, P. et al., The cubicon method for concentrating membrane proteins in the cubic mesophase. Nat Protoc (2017)

Release Date

2016-08-17

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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