SMTL ID : 9hxc.1

CryoEM structure of Asgard AtubA/B2 microtubule

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-14-14-mer

Ligands

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

GDP.1: 16 residues within 4Å: Chain A: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:Q.12, A:N.95, A:N.95, A:S.134, A:G.138, A:T.139, A:T.139, A:G.140, A:E.173, A:E.173, A:N.200, A:N.200, A:N.222, A:N.222 GDP.2: 16 residues within 4Å: Chain C: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:Q.12, C:N.95, C:N.95, C:S.134, C:G.138, C:T.139, C:T.139, C:G.140, C:E.173, C:E.173, C:N.200, C:N.200, C:N.222, C:N.222 GDP.3: 16 residues within 4Å: Chain E: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain E Hydrogen bonds: E:Q.12, E:N.95, E:N.95, E:S.134, E:G.138, E:T.139, E:T.139, E:G.140, E:E.173, E:E.173, E:N.200, E:N.200, E:N.222, E:N.222 GDP.4: 16 residues within 4Å: Chain G: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain G Hydrogen bonds: G:Q.12, G:N.95, G:N.95, G:S.134, G:G.138, G:T.139, G:T.139, G:G.140, G:E.173, G:E.173, G:N.200, G:N.200, G:N.222, G:N.222 GDP.5: 16 residues within 4Å: Chain I: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain I Hydrogen bonds: I:Q.12, I:N.95, I:N.95, I:S.134, I:G.138, I:T.139, I:T.139, I:G.140, I:E.173, I:E.173, I:N.200, I:N.200, I:N.222, I:N.222 GDP.6: 16 residues within 4Å: Chain K: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain K Hydrogen bonds: K:Q.12, K:N.95, K:N.95, K:S.134, K:G.138, K:T.139, K:T.139, K:G.140, K:E.173, K:E.173, K:N.200, K:N.200, K:N.222, K:N.222 GDP.7: 16 residues within 4Å: Chain M: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 14 PLIP interactions: 14 interactions with chain M Hydrogen bonds: M:Q.12, M:N.95, M:N.95, M:S.134, M:G.138, M:T.139, M:T.139, M:G.140, M:E.173, M:E.173, M:N.200, M:N.200, M:N.222, M:N.222 GDP.8: 17 residues within 4Å: Chain B: R.246 Chain O: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 17 PLIP interactions: 14 interactions with chain O, 3 interactions with chain B Hydrogen bonds: O:Q.12, O:N.95, O:N.95, O:S.134, O:G.138, O:T.139, O:T.139, O:G.140, O:E.173, O:E.173, O:N.200, O:N.200, O:N.222, O:N.222 Salt bridges: B:R.246, B:R.246, B:K.346 GDP.9: 17 residues within 4Å: Chain D: R.246 Chain Q: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 16 PLIP interactions: 2 interactions with chain D, 14 interactions with chain Q Salt bridges: D:R.246, D:R.246 Hydrogen bonds: Q:Q.12, Q:N.95, Q:N.95, Q:S.134, Q:G.138, Q:T.139, Q:T.139, Q:G.140, Q:E.173, Q:E.173, Q:N.200, Q:N.200, Q:N.222, Q:N.222 GDP.10: 17 residues within 4Å: Chain F: R.246 Chain S: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 16 PLIP interactions: 14 interactions with chain S, 2 interactions with chain F Hydrogen bonds: S:Q.12, S:N.95, S:N.95, S:S.134, S:G.138, S:T.139, S:T.139, S:G.140, S:E.173, S:E.173, S:N.200, S:N.200, S:N.222, S:N.222 Salt bridges: F:R.246, F:R.246 GDP.11: 17 residues within 4Å: Chain H: R.246 Chain U: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 16 PLIP interactions: 14 interactions with chain U, 2 interactions with chain H Hydrogen bonds: U:Q.12, U:N.95, U:N.95, U:S.134, U:G.138, U:T.139, U:T.139, U:G.140, U:E.173, U:E.173, U:N.200, U:N.200, U:N.222, U:N.222 Salt bridges: H:R.246, H:R.246 GDP.12: 17 residues within 4Å: Chain J: R.246 Chain W: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 16 PLIP interactions: 14 interactions with chain W, 2 interactions with chain J Hydrogen bonds: W:Q.12, W:N.95, W:N.95, W:S.134, W:G.138, W:T.139, W:T.139, W:G.140, W:E.173, W:E.173, W:N.200, W:N.200, W:N.222, W:N.222 Salt bridges: J:R.246, J:R.246 GDP.13: 17 residues within 4Å: Chain L: R.246 Chain Y: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 16 PLIP interactions: 14 interactions with chain Y, 2 interactions with chain L Hydrogen bonds: Y:Q.12, Y:N.95, Y:N.95, Y:S.134, Y:G.138, Y:T.139, Y:T.139, Y:G.140, Y:E.173, Y:E.173, Y:N.200, Y:N.200, Y:N.222, Y:N.222 Salt bridges: L:R.246, L:R.246 GDP.14: 17 residues within 4Å: Chain 0: G.11, Q.12, A.13, Q.16, N.95, S.134, G.137, G.138, T.139, G.140, E.173, N.200, L.218, L.221, N.222, I.225 Chain N: R.246 16 PLIP interactions: 14 interactions with chain 0, 2 interactions with chain N Hydrogen bonds: 0:Q.12, 0:N.95, 0:N.95, 0:S.134, 0:G.138, 0:T.139, 0:T.139, 0:G.140, 0:E.173, 0:E.173, 0:N.200, 0:N.200, 0:N.222, 0:N.222 Salt bridges: N:R.246, N:R.246

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wollweber, F. et al., Microtubules in Asgard archaea. Cell (2025)

Release Date

2025-04-02

Peptides

Asgard tubulin AtubA with residues from TEV protease cleavage site: ACEGIKMOQSUWY0
Asgard tubulin AtubB2: BDFHJLNPRTVXZ1

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
E

G
G

I
I

K
K

M
M

O
O

Q
Q

S
S

U
U

W
W

Y
Y

0
a

B
D

D
C

F
F

H
H

J
J

L
L

N
N

P
P

R
R

T
T

V
V

X
X

Z
Z

1
b

Asgard tubulin AtubA with residues from TEV protease cleavage site

Asgard tubulin AtubB2

Related Entries With Identical Sequence