SMTL ID : 6mlq.1

Cryo-EM structure of microtubule-bound Kif7 in the ADP state

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY 4.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: G.10, Q.11, A.12 Ligands: GTP.2 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain C: T.102 Ligands: ADP.5 No protein-ligand interaction detected (PLIP)

1 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.2: 19 residues within 4Å: Chain A: G.10, Q.11, A.12, Q.15, D.69, A.99, N.101, S.140, G.142, G.143, T.145, G.146, I.171, T.179, Y.224, L.227, N.228 Chain B: L.246 Ligands: MG.1 14 PLIP interactions: 13 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.12, A:N.101, A:S.140, A:G.142, A:G.143, A:T.145, A:G.146, A:T.179, A:N.228, A:N.228, B:N.247 pi-Stacking: A:Y.224, A:Y.224 pi-Cation interactions: A:Y.224

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.3: 11 residues within 4Å: Chain B: G.10, Q.11, C.12, S.138, G.140, G.141, T.143, N.204, Y.222, L.225, N.226 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:Q.11, B:C.12, B:G.13, B:S.138, B:T.143, B:T.178, B:T.178, B:N.204, B:N.204, B:N.226, B:N.226 pi-Cation interactions: B:Y.222

1 x TA1: TAXOL(Non-covalent)

TA1.4: 16 residues within 4Å: Chain B: E.22, V.23, D.26, D.224, H.227, L.228, A.231, S.234, F.270, P.272, T.274, R.276, P.358, R.359, G.360, L.361 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:V.23, B:V.23, B:D.26, B:D.224, B:A.231, B:F.270, B:P.358, B:L.361 Hydrogen bonds: B:T.274, B:T.274, B:R.359, B:G.360 pi-Stacking: B:H.227

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

ADP.5: 13 residues within 4Å: Chain C: R.22, R.24, P.25, Q.96, T.97, G.98, S.99, G.100, K.101, T.102, Y.103, E.117 Ligands: MG.6 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:R.22, C:R.22, C:G.98, C:S.99, C:G.100, C:K.101, C:T.102, C:T.102, C:T.102, C:Y.103 Salt bridges: C:K.101 pi-Stacking: C:Y.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, S. et al., Interplay between the Kinesin and Tubulin Mechanochemical Cycles Underlies Microtubule Tip Tracking by the Non-motile Ciliary Kinesin Kif7. Dev.Cell (2019)

Release Date

2019-05-01

Peptides

Tubulin alpha-1A chain: A
Tubulin beta chain: B
Kinesin-like protein KIF7: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Tubulin alpha-1A chain

Tubulin beta chain

Kinesin-like protein KIF7

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