SMTL ID : 8dyv.1

Structure of human cytoplasmic dynein-1 bound to one Lis1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

3 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 20 residues within 4Å: Chain A: L.561, V.562, T.564, T.567, A.590, G.591, T.592, G.593, K.594, T.595, E.596, T.699, N.701, I.731, M.735, L.772, R.773, K.776, D.1003, R.1040 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:V.562, A:V.562, A:G.591, A:G.593, A:K.594, A:T.595, A:E.596, A:N.701, A:R.773, A:R.773, A:K.776 Salt bridges: A:R.773, A:R.1040 ADP.2: 19 residues within 4Å: Chain A: T.1253, T.1256, P.1279, G.1280, S.1281, G.1282, K.1283, T.1284, M.1285, P.1421, S.1425, L.1426, I.1429, Y.1430, P.1478, R.1479, T.1482, N.1769, R.1770 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.1280, A:G.1282, A:K.1283, A:T.1284, A:M.1285, A:S.1425, A:S.1425, A:Y.1430, A:Y.1430, A:T.1482, A:N.1769 Salt bridges: A:K.1283, A:R.1479, A:R.1479 ADP.4: 21 residues within 4Å: Chain A: V.1589, P.1590, L.1591, V.1592, F.1594, V.1597, S.1621, G.1622, A.1623, G.1624, K.1625, T.1626, T.1627, R.1630, W.1779, R.1856, L.1859, N.2332, R.2333, E.2334, R.2377 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:V.1592, A:V.1592, A:V.1620, A:S.1621, A:G.1622, A:A.1623, A:G.1624, A:K.1625, A:T.1626, A:T.1626, A:T.1626, A:T.1627, A:R.1856, A:R.2377 Salt bridges: A:K.1625

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.3: 20 residues within 4Å: Chain A: L.873, T.874, W.885, P.907, S.908, G.909, S.910, G.911, K.912, S.913, M.914, E.1026, L.1051, M.1055, I.1056, N.1059, R.1063, L.1134, R.1408, R.1411 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:T.874, A:P.907, A:S.908, A:G.909, A:S.910, A:G.911, A:K.912, A:S.913, A:S.913, A:S.913, A:M.914, A:E.1026, A:N.1059 Salt bridges: A:K.912, A:K.912, A:R.1408, A:R.1411, A:R.1411

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reimer, J.M. et al., Structures of human dynein in complex with the lissencephaly 1 protein, LIS1. Elife (2023)

Release Date

2023-02-01

Peptides

Cytoplasmic dynein 1 heavy chain 1: A
Platelet-activating factor acetylhydrolase IB subunit beta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytoplasmic dynein 1 heavy chain 1

Platelet-activating factor acetylhydrolase IB subunit beta

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