SMTL ID : 3edl.1 (1 other biounit)

Kinesin13-Microtubule Ring complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: Y.282, H.283 No protein-ligand interaction detected (PLIP)

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: Q.11, D.69, E.71 Ligands: GTP.3 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain C: T.97 Ligands: ANP.7 4 PLIP interactions: 1 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.97, H2O.3, H2O.3, H2O.3 MG.8: 6 residues within 4Å: Chain D: D.98, A.99, N.101, G.144, T.145 Ligands: GTP.9 No protein-ligand interaction detected (PLIP)

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

GTP.3: 22 residues within 4Å: Chain A: G.10, Q.11, A.12, Q.15, A.99, A.100, N.101, S.140, G.143, G.144, T.145, G.146, I.171, T.179, E.183, N.206, Y.224, L.227, N.228 Chain B: L.246, K.252 Ligands: MG.2 22 PLIP interactions: 20 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.11, A:Q.11, A:A.12, A:A.100, A:A.100, A:N.101, A:S.140, A:G.144, A:T.145, A:G.146, A:T.179, A:T.179, A:E.183, A:N.206, A:Y.224, A:N.228, A:N.228, A:N.228 pi-Stacking: A:Y.224, A:Y.224 Salt bridges: B:K.252, B:K.252 GTP.9: 26 residues within 4Å: Chain D: G.10, Q.11, A.12, Q.15, I.16, D.69, E.71, D.98, A.99, S.140, G.142, G.143, G.144, T.145, G.146, I.171, P.173, V.177, S.178, E.183, N.206, Y.224, N.228, I.231 Chain E: K.252 Ligands: MG.8 18 PLIP interactions: 17 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:Q.11, D:Q.11, D:A.12, D:D.98, D:S.140, D:G.144, D:T.145, D:G.146, D:S.178, D:E.183, D:N.206, D:N.206, D:Y.224, D:N.228, D:N.228 pi-Stacking: D:Y.224, D:Y.224 Salt bridges: E:K.252

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

GDP.4: 15 residues within 4Å: Chain B: G.10, Q.11, C.12, Q.15, S.138, G.140, G.141, G.142, T.143, G.144, D.177, E.181, N.204, Y.222, N.226 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:Q.11, B:Q.11, B:C.12, B:S.138, B:G.142, B:T.143, B:T.143, B:T.143, B:T.143, B:D.177, B:E.181, B:N.204, B:Y.222, B:N.226, B:N.226, B:N.226 GDP.10: 17 residues within 4Å: Chain E: G.10, Q.11, C.12, N.99, S.138, G.140, G.141, G.142, T.143, G.144, P.171, V.175, D.177, E.181, N.204, Y.222, N.226 17 PLIP interactions: 17 interactions with chain E Hydrogen bonds: E:Q.11, E:C.12, E:N.99, E:S.138, E:G.142, E:T.143, E:T.143, E:T.143, E:G.144, E:V.175, E:D.177, E:N.204, E:N.204, E:Y.222, E:N.226, E:N.226 pi-Stacking: E:Y.222

1 x TA1: TAXOL(Non-covalent)

TA1.5: 19 residues within 4Å: Chain B: E.22, V.23, D.26, E.27, L.215, D.224, H.227, L.228, A.231, S.234, F.270, P.272, L.273, T.274, S.275, R.276, P.358, R.359, G.360 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:V.23, B:D.26, B:L.215, B:H.227, B:L.228, B:F.270, B:F.270, B:F.270, B:P.358 Hydrogen bonds: B:T.274, B:P.358, B:G.360 pi-Stacking: B:H.227

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

ANP.7: 16 residues within 4Å: Chain C: R.6, R.8, P.9, Q.91, T.92, G.93, S.94, G.95, K.96, T.97, H.98, L.104, S.209, S.210, G.237 Ligands: MG.6 23 PLIP interactions: 23 interactions with chain C Hydrogen bonds: C:R.6, C:G.93, C:S.94, C:S.94, C:G.95, C:G.95, C:K.96, C:K.96, C:T.97, C:H.98, C:S.209, C:S.210, C:G.237 Water bridges: C:R.6, C:R.6, C:R.6, C:N.11, C:R.198, C:R.198, C:S.209, C:S.209 pi-Stacking: C:H.98, C:H.98

1 x CN2: 2-MERCAPTO-N-[1,2,3,10-TETRAMETHOXY-9-OXO-5,6,7,9-TETRAHYDRO-BENZO[A]HEPTALEN-7-YL]ACETAMIDE(Non-covalent)

CN2.11: 17 residues within 4Å: Chain D: S.178, T.179, A.180, V.181 Chain E: V.236, C.239, L.240, L.246, A.248, K.252, L.253, N.256, M.257, V.313, A.314, K.350, I.368 8 PLIP interactions: 2 interactions with chain D, 6 interactions with chain E Hydrogen bonds: D:S.178, D:V.181, E:N.256, E:K.350 Hydrophobic interactions: E:A.248, E:K.252, E:L.253, E:N.256

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, D. et al., Structure of the kinesin13-microtubule ring complex. Structure (2008)

Release Date

2009-01-20

Peptides

Tubulin alpha-1A chain: A
Beta tubulin: BE
Kinesin-like protein KIF2C: C
Tubulin alpha-1A chain: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

E
G

C
D

D
F

Tubulin alpha-1A chain

Beta tubulin

Kinesin-like protein KIF2C

Tubulin alpha-1A chain

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