SMTL ID : 6gwd.1

Tubulin:iiH5 alphaRep complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-3-3-3-mer

Ligands

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

GTP.1: 30 residues within 4Å: Chain A: G.10, Q.11, A.12, Q.15, I.16, D.69, E.71, D.98, A.99, A.100, N.101, S.140, G.142, G.143, G.144, T.145, G.146, I.171, P.173, V.177, S.178, T.179, E.183, N.206, Y.224, L.227, N.228, I.231 Chain B: K.252 Ligands: MG.2 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.11, A:Q.11, A:A.12, A:Q.15, A:A.99, A:N.101, A:S.140, A:G.144, A:T.145, A:T.145, A:G.146, A:V.177, A:N.206, A:N.206, A:Y.224, A:Y.224, A:N.228, A:N.228 Salt bridges: B:K.252 GTP.4: 28 residues within 4Å: Chain C: G.10, Q.11, A.12, Q.15, I.16, D.69, D.98, A.99, A.100, N.101, S.140, G.142, G.143, G.144, T.145, G.146, I.171, P.173, A.174, V.177, T.179, E.183, N.206, Y.224, L.227, N.228, I.231 Ligands: MG.5 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:Q.11, C:Q.11, C:A.12, C:A.99, C:N.101, C:S.140, C:G.144, C:T.145, C:T.145, C:G.146, C:N.206, C:N.206, C:Y.224, C:Y.224, C:N.228, C:N.228 pi-Stacking: C:Y.224, C:Y.224 GTP.7: 29 residues within 4Å: Chain E: G.10, Q.11, A.12, Q.15, I.16, D.69, E.71, D.98, A.99, A.100, N.101, S.140, G.142, G.143, G.144, T.145, G.146, I.171, V.177, S.178, T.179, E.183, N.206, Y.224, L.227, N.228, I.231 Chain F: K.252 Ligands: MG.8 20 PLIP interactions: 1 interactions with chain F, 19 interactions with chain E Salt bridges: F:K.252 Hydrogen bonds: E:Q.11, E:Q.11, E:A.12, E:Q.15, E:D.69, E:A.99, E:N.101, E:S.140, E:G.144, E:T.145, E:T.145, E:G.146, E:V.177, E:N.206, E:N.206, E:Y.224, E:N.228, E:N.228 pi-Stacking: E:Y.224

3 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.71 Chain B: K.252 Ligands: GTP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.71 MG.5: 2 residues within 4Å: Chain C: D.69 Ligands: GTP.4 No protein-ligand interaction detected (PLIP) MG.8: 4 residues within 4Å: Chain E: Q.11, E.71 Chain F: K.252 Ligands: GTP.7 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:E.71, E:E.71

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

GDP.3: 24 residues within 4Å: Chain B: G.10, Q.11, C.12, Q.15, I.16, N.99, S.138, G.140, G.141, G.142, T.143, G.144, V.169, P.171, S.172, V.175, S.176, E.181, N.204, L.207, Y.222, L.225, N.226, V.229 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:Q.11, B:Q.11, B:C.12, B:D.67, B:N.99, B:S.138, B:G.142, B:T.143, B:T.143, B:G.144, B:E.181, B:N.204, B:N.204, B:Y.222, B:Y.222, B:N.226, B:N.226 pi-Stacking: B:Y.222, B:Y.222 GDP.6: 23 residues within 4Å: Chain D: G.10, Q.11, C.12, Q.15, I.16, N.99, S.138, G.140, G.141, G.142, T.143, G.144, V.169, P.171, S.172, V.175, S.176, E.181, N.204, L.207, Y.222, L.225, N.226 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:Q.11, D:C.12, D:D.67, D:S.138, D:G.142, D:T.143, D:T.143, D:T.143, D:G.144, D:E.181, D:N.204, D:N.204, D:Y.222, D:N.226, D:N.226 GDP.9: 23 residues within 4Å: Chain F: G.10, Q.11, C.12, Q.15, I.16, N.99, S.138, G.140, G.141, G.142, T.143, G.144, V.169, P.171, S.172, V.175, S.176, E.181, N.204, L.207, Y.222, L.225, N.226 16 PLIP interactions: 16 interactions with chain F Hydrogen bonds: F:Q.11, F:C.12, F:D.67, F:S.138, F:G.142, F:T.143, F:T.143, F:G.144, F:E.181, F:N.204, F:N.204, F:Y.222, F:N.226, F:N.226 pi-Stacking: F:Y.222, F:Y.222

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Campanacci, V. et al., Selection and Characterization of Artificial Proteins Targeting the Tubulin alpha Subunit. Structure (2019)

Release Date

2019-01-30

Peptides

ALPHA-TUBULIN: ACE
Tubulin beta chain: BDF
iiH5 ALPHAREP: GHI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

B
B

D
D

F
F

G
G

H
H

I
I

ALPHA-TUBULIN

Tubulin beta chain

iiH5 ALPHAREP

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