SMTL ID : 6v6s.1

Structure of the native human gamma-tubulin ring complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-5-5-2-1-1-5-1-2-1-1-14-mer

Ligands

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

ADP.1: 13 residues within 4Å: Chain T: G.12, S.13, G.14, M.15, G.155, D.156, G.181, R.182, E.213, G.300, G.301, T.302, M.304 6 PLIP interactions: 6 interactions with chain T Hydrogen bonds: T:S.13, T:G.14, T:M.15, T:M.15, T:D.156, T:G.301

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

GDP.2: 14 residues within 4Å: Chain Y: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain Y Hydrogen bonds: Y:Q.12, Y:G.101, Y:S.140, Y:G.144, Y:T.145, Y:G.146, Y:N.207, Y:N.207, Y:N.229, Y:N.229 pi-Stacking: Y:F.225 GDP.3: 12 residues within 4Å: Chain Z: Q.12, C.13, Q.16, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain Z Hydrogen bonds: Z:Q.12, Z:S.140, Z:T.145, Z:T.145, Z:G.146, Z:N.207, Z:N.207, Z:N.229, Z:N.229 pi-Stacking: Z:F.225, Z:F.225 GDP.4: 13 residues within 4Å: Chain 0: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, N.207, F.225, N.229 12 PLIP interactions: 12 interactions with chain 0 Hydrogen bonds: 0:G.101, 0:S.140, 0:G.144, 0:T.145, 0:G.146, 0:N.207, 0:N.207, 0:N.229, 0:N.229 pi-Stacking: 0:F.225, 0:F.225 pi-Cation interactions: 0:F.225 GDP.5: 14 residues within 4Å: Chain 1: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain 1 Hydrogen bonds: 1:Q.12, 1:S.140, 1:T.145, 1:T.145, 1:G.146, 1:N.207, 1:N.207, 1:N.229, 1:N.229 pi-Stacking: 1:F.225, 1:F.225 GDP.6: 14 residues within 4Å: Chain 2: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain 2 Hydrogen bonds: 2:Q.12, 2:G.101, 2:S.140, 2:G.144, 2:T.145, 2:G.146, 2:N.207, 2:N.207, 2:N.229, 2:N.229 pi-Stacking: 2:F.225 GDP.7: 13 residues within 4Å: Chain 3: G.11, Q.12, C.13, Q.16, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain 3 Hydrogen bonds: 3:Q.12, 3:S.140, 3:T.145, 3:T.145, 3:G.146, 3:N.207, 3:N.207, 3:N.229, 3:N.229 pi-Stacking: 3:F.225, 3:F.225 GDP.8: 13 residues within 4Å: Chain 4: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, N.207, F.225, N.229 12 PLIP interactions: 12 interactions with chain 4 Hydrogen bonds: 4:G.101, 4:S.140, 4:G.144, 4:T.145, 4:G.146, 4:N.207, 4:N.207, 4:N.229, 4:N.229 pi-Stacking: 4:F.225, 4:F.225 pi-Cation interactions: 4:F.225 GDP.9: 12 residues within 4Å: Chain 5: Q.12, C.13, Q.16, S.140, A.142, G.144, T.145, G.146, V.171, N.207, F.225, N.229 11 PLIP interactions: 11 interactions with chain 5 Hydrogen bonds: 5:Q.12, 5:S.140, 5:T.145, 5:T.145, 5:G.146, 5:N.207, 5:N.207, 5:N.229, 5:N.229 pi-Stacking: 5:F.225, 5:F.225 GDP.10: 14 residues within 4Å: Chain 6: G.11, Q.12, C.13, Q.16, G.101, N.102, S.140, A.142, G.144, T.145, N.207, F.225, I.228, N.229 11 PLIP interactions: 11 interactions with chain 6 Hydrogen bonds: 6:Q.12, 6:G.101, 6:S.140, 6:G.144, 6:T.145, 6:N.207, 6:N.229, 6:N.229 pi-Stacking: 6:F.225, 6:F.225 pi-Cation interactions: 6:F.225 GDP.11: 14 residues within 4Å: Chain 7: G.11, Q.12, C.13, Q.16, N.102, S.140, A.142, G.144, T.145, G.146, N.207, F.225, I.228, N.229 13 PLIP interactions: 13 interactions with chain 7 Hydrogen bonds: 7:Q.12, 7:S.140, 7:G.144, 7:T.145, 7:T.145, 7:T.145, 7:G.146, 7:N.207, 7:N.207, 7:N.229, 7:N.229 pi-Stacking: 7:F.225, 7:F.225 GDP.12: 10 residues within 4Å: Chain 8: Q.12, C.13, Q.16, A.142, G.143, G.144, T.145, N.207, F.225, N.229 9 PLIP interactions: 9 interactions with chain 8 Hydrogen bonds: 8:Q.12, 8:G.144, 8:T.145, 8:N.207, 8:N.207, 8:N.229, 8:N.229 pi-Stacking: 8:F.225, 8:F.225 GDP.13: 12 residues within 4Å: Chain 9: G.11, Q.12, C.13, Q.16, S.140, A.142, G.144, T.145, G.146, N.207, F.225, N.229 10 PLIP interactions: 10 interactions with chain 9 Hydrogen bonds: 9:Q.12, 9:S.140, 9:A.142, 9:T.145, 9:T.145, 9:G.146, 9:N.207, 9:N.229, 9:N.229 pi-Stacking: 9:F.225 GDP.14: 13 residues within 4Å: Chain a: G.11, Q.12, C.13, Q.16, G.101, S.140, A.142, G.144, T.145, G.146, N.207, F.225, N.229 12 PLIP interactions: 12 interactions with chain a Hydrogen bonds: a:G.101, a:S.140, a:G.144, a:T.145, a:G.146, a:N.207, a:N.207, a:N.229, a:N.229 pi-Stacking: a:F.225, a:F.225 pi-Cation interactions: a:F.225 GDP.15: 9 residues within 4Å: Chain b: Q.12, C.13, G.101, A.142, G.143, G.144, T.145, G.146, F.225 3 PLIP interactions: 3 interactions with chain b Hydrogen bonds: b:G.101, b:T.145, b:G.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wieczorek, M. et al., Asymmetric Molecular Architecture of the Human gamma-Tubulin Ring Complex. Cell (2020)

Release Date

2020-01-01

Peptides

Gamma-tubulin complex component 2: ACEGM
Gamma-tubulin complex component 3: BDFHS
Gamma-tubulin complex component 4: IK
Gamma-tubulin complex component 5: J
Gamma-tubulin complex component 6: L
Unassigned poly-alanine chain ("staple"): NOPQR
beta actin: T
Unassigned poly-alanine model ("CC"): UX
Unassigned poly-alanine model ("HB"): V
Unassigned poly-alanine model ("Lumenal bridge helical bundles"): W
Tubulin gamma-1 chain: YZ0123456789ab

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

M
M

B
B

D
D

F
F

H
H

S
T

I
I

K
K

J
J

L
L

N
N

O
O

P
Q

Q
R

R
S

T
U

U
V

X
Y

V
W

W
X

Y
a

Z
b

0
c

1
d

2
e

3
f

4
g

5
h

6
i

7
j

8
k

9
l

a
m

b
t

Gamma-tubulin complex component 2

Gamma-tubulin complex component 3

Gamma-tubulin complex component 4

Gamma-tubulin complex component 5

Gamma-tubulin complex component 6

Unassigned poly-alanine chain ("staple")

beta actin

Unassigned poly-alanine model ("CC")

Unassigned poly-alanine model ("HB")

Unassigned poly-alanine model ("Lumenal bridge helical bundles")

Tubulin gamma-1 chain

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