SMTL ID : 5mm7.1

Ustilago maydis kinesin-5 motor domain with N-terminal extension in the AMPPNP state bound to microtubules

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: G.186, K.187, T.188, H.189 Ligands: ANP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:G.186 MG.4: 3 residues within 4Å: Chain B: D.98, T.145 Ligands: GTP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.145

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 20 residues within 4Å: Chain A: R.83, V.84, R.85, G.86, Q.87, E.91, G.184, T.185, G.186, K.187, T.188, H.189, N.316, Q.318, S.319, S.320, L.353, A.354, G.355 Ligands: MG.1 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:R.83, A:V.84, A:G.184, A:T.185, A:G.186, A:K.187, A:K.187, A:K.187, A:T.188, A:T.188, A:N.316, A:Q.318, A:S.320, A:S.320, A:S.320, A:G.355

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

GTP.3: 20 residues within 4Å: Chain B: G.10, Q.11, A.12, Q.15, D.98, A.100, N.101, S.140, G.143, G.144, T.145, G.146, I.171, T.179, E.183, N.206, Y.224, N.228 Chain C: K.252 Ligands: MG.4 20 PLIP interactions: 18 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:Q.11, B:Q.11, B:A.12, B:A.100, B:N.101, B:S.140, B:G.143, B:G.144, B:T.145, B:G.146, B:E.183, B:N.206, B:N.228, B:N.228, B:N.228 pi-Stacking: B:Y.224, B:Y.224 pi-Cation interactions: B:Y.224 Salt bridges: C:K.252, C:K.252

1 x TA1: TAXOL(Non-covalent)

TA1.5: 15 residues within 4Å: Chain C: V.23, D.26, D.224, H.227, L.228, A.231, S.234, F.270, P.272, T.274, S.275, P.358, R.359, G.360, L.361 12 PLIP interactions: 12 interactions with chain C Hydrophobic interactions: C:V.23, C:V.23, C:D.26, C:H.227, C:L.228, C:A.231, C:F.270, C:F.270, C:T.274, C:P.358 Hydrogen bonds: C:T.274, C:R.359

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

GDP.6: 13 residues within 4Å: Chain C: G.10, Q.11, C.12, N.99, S.138, G.140, G.141, G.142, T.143, G.144, N.204, Y.222, N.226 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:Q.11, C:Q.11, C:C.12, C:S.138, C:G.141, C:G.142, C:T.143, C:T.143, C:T.143, C:G.144, C:N.204, C:N.204, C:Y.222, C:N.226, C:N.226 pi-Stacking: C:Y.222, C:Y.222 pi-Cation interactions: C:Y.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

von Loeffelholz, O. et al., Cryo-EM structure of the Ustilago maydis kinesin-5 motor domain bound to microtubules. J.Struct.Biol. (2019)

Release Date

2018-08-08

Peptides

kinesin-5: A
Tubulin alpha-1A chain: B
Tubulin beta chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
K

B
A

C
B

kinesin-5

Tubulin alpha-1A chain

Tubulin beta chain

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