SMTL ID : 8fcy.1

Engineered human dynein motor domain in microtubule-bound state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

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

ADP.1: 15 residues within 4Å: Chain A: L.424, V.425, T.430, A.453, G.454, T.455, G.456, K.457, T.458, E.459, D.503, I.594, L.635, R.636, K.639 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:V.425, A:V.425, A:G.454, A:G.456, A:K.457, A:T.458, A:E.459, A:E.459, A:E.459, A:D.503, A:R.636, A:K.639 Salt bridges: A:K.457 ADP.3: 15 residues within 4Å: Chain A: V.1113, V.1114, T.1119, P.1142, G.1143, S.1144, G.1145, K.1146, T.1147, M.1148, I.1292, Y.1293, P.1341, R.1342, T.1345 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:V.1114, A:V.1114, A:T.1119, A:G.1143, A:G.1145, A:K.1146, A:T.1147, A:M.1148, A:Y.1293, A:T.1345 Salt bridges: A:K.1146, A:R.1342, A:R.1342 ADP.4: 17 residues within 4Å: Chain A: V.1452, P.1453, L.1454, V.1455, F.1457, V.1460, V.1483, S.1484, G.1485, A.1486, G.1487, K.1488, T.1489, T.1490, W.1642, R.1719, L.1722 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:V.1455, A:V.1455, A:G.1485, A:A.1486, A:G.1487, A:K.1488, A:T.1489, A:T.1489, A:T.1490, A:T.1490 Salt bridges: A:K.1488, A:R.1719, A:R.1719 pi-Stacking: A:W.1642, A:W.1642

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

ATP.2: 19 residues within 4Å: Chain A: L.736, T.737, W.748, S.771, G.772, S.773, G.774, K.775, S.776, M.777, E.889, L.914, M.918, I.919, N.922, R.1229, E.1233, R.1271, R.1274 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:T.737, A:T.737, A:S.771, A:G.772, A:K.775, A:S.776, A:M.777, A:R.1274 Salt bridges: A:K.775, A:K.775, A:R.1229, A:R.1271, A:R.1274, A:R.1274, A:R.1274 pi-Stacking: A:W.748, A:W.748

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ton, W.D. et al., Microtubule-binding-induced allostery triggers LIS1 dissociation from dynein prior to cargo transport. Nat.Struct.Mol.Biol. (2023)

Release Date

2023-06-21

Peptides

Cytoplasmic dynein 1 heavy chain 1,Serine--tRNA ligase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytoplasmic dynein 1 heavy chain 1,Serine--tRNA ligase