SMTL ID : 6i7s.2 (1 other biounit)

Microsomal triglyceride transfer protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: A.365, D.367, K.370, F.430, P.431 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.365, A:D.367, A:K.370, A:F.430, A:P.431

5 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 3 residues within 4Å: Chain A: A.102, R.104, K.231 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.104 PGE.3: 3 residues within 4Å: Chain A: Y.311, G.333, I.335 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.333 PGE.12: 5 residues within 4Å: Chain B: Q.499, R.500, Y.501, D.502, F.641 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.502, B:Y.643 PGE.13: 4 residues within 4Å: Chain A: V.80, R.81 Chain B: Y.544, E.589 No protein-ligand interaction detected (PLIP) PGE.14: 6 residues within 4Å: Chain B: L.16, S.17, L.26, F.216, V.217, I.218 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.17, B:V.217

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 4 residues within 4Å: Chain A: E.306, E.307, M.308 Chain B: H.593 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:H.593 Hydrogen bonds: A:M.308 Water bridges: A:M.308 SO4.15: 2 residues within 4Å: Chain B: T.507, D.508 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.508 SO4.16: 3 residues within 4Å: Chain B: Q.559, R.600, S.601 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.601, B:S.601 Water bridges: B:N.562, B:N.562 Salt bridges: B:R.600 SO4.17: 3 residues within 4Å: Chain B: Q.520, R.530, P.558 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.520 Salt bridges: B:R.530

8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 2 residues within 4Å: Chain A: V.221, K.260 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.260 EDO.6: 4 residues within 4Å: Chain A: Y.33, C.40, A.44, K.65 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.65 EDO.7: 3 residues within 4Å: Chain A: H.401, N.403, E.455 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.403, A:E.455 EDO.18: 2 residues within 4Å: Chain B: R.692, T.695 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.692, B:T.695 EDO.19: 2 residues within 4Å: Chain B: R.302, N.342 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.302, B:R.302, B:N.342 EDO.20: 3 residues within 4Å: Chain B: P.194, N.195, Q.431 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.195 EDO.21: 2 residues within 4Å: Chain B: Y.304, E.314 No protein-ligand interaction detected (PLIP) EDO.22: 2 residues within 4Å: Chain B: T.155, N.156 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.156, B:N.156

7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 3 residues within 4Å: Chain A: E.161, A.162, K.206 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.206 PEG.9: 2 residues within 4Å: Chain A: H.422 Chain B: R.613 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.613 PEG.23: 6 residues within 4Å: Chain B: R.382, Y.385, F.389, L.691, V.718, G.720 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.721, B:L.721 PEG.24: 3 residues within 4Å: Chain B: M.682, F.696, A.754 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.754 PEG.25: 2 residues within 4Å: Chain B: R.848, K.849 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.849, B:K.849 PEG.26: 7 residues within 4Å: Chain B: T.27, Y.28, S.29, S.50, S.51, N.52, K.245 No protein-ligand interaction detected (PLIP) PEG.27: 4 residues within 4Å: Chain B: R.188, S.189, G.190, F.191 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.190

1 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.10: 7 residues within 4Å: Chain B: S.636, S.652, V.654, V.768, N.770, F.803, S.805 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.652, B:N.770, B:S.805

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.11: 7 residues within 4Å: Chain B: K.89, T.839, G.840, R.841, G.842, V.844, Q.846 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.89 Water bridges: B:Q.846

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Biterova, E.I. et al., The crystal structure of human microsomal triglyceride transfer protein. Proc.Natl.Acad.Sci.USA (2019)

Release Date

2019-08-21

Peptides

Protein disulfide-isomerase: A
Microsomal triglyceride transfer protein large subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
H

Protein disulfide-isomerase

Microsomal triglyceride transfer protein large subunit

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