SMTL ID : 7qin.1

In situ structure of actomyosin complex in skeletal sarcomere

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

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

ADP.1: 14 residues within 4Å: Chain A: G.9, S.10, G.11, G.152, D.153, G.154, R.206, K.209, E.210, G.298, M.301, Y.302, K.332 Ligands: MG.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.10, A:G.152, A:D.153, A:D.153, A:G.154, A:R.206, A:E.210, A:G.298 ADP.3: 14 residues within 4Å: Chain B: G.9, S.10, G.11, G.152, D.153, G.154, R.206, K.209, E.210, G.298, M.301, Y.302, K.332 Ligands: MG.4 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:S.10, B:G.152, B:D.153, B:G.154, B:R.206, B:E.210, B:G.298 ADP.5: 14 residues within 4Å: Chain C: G.9, S.10, G.11, G.152, D.153, G.154, R.206, K.209, E.210, G.298, M.301, Y.302, K.332 Ligands: MG.6 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:S.10, C:G.152, C:D.153, C:D.153, C:G.154, C:R.206, C:E.210, C:G.298 ADP.7: 14 residues within 4Å: Chain D: G.9, S.10, G.11, G.152, D.153, G.154, R.206, K.209, E.210, G.298, M.301, Y.302, K.332 Ligands: MG.8 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:S.10, D:G.152, D:D.153, D:G.154, D:R.206, D:E.210, D:G.298 ADP.9: 14 residues within 4Å: Chain E: G.9, S.10, G.11, G.152, D.153, G.154, R.206, K.209, E.210, G.298, M.301, Y.302, K.332 Ligands: MG.10 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:S.10, E:G.152, E:D.153, E:D.153, E:G.154, E:R.206, E:E.210, E:G.298

5 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: Q.133 Ligands: ADP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: Q.133 Ligands: ADP.3 No protein-ligand interaction detected (PLIP) MG.6: 2 residues within 4Å: Chain C: Q.133 Ligands: ADP.5 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain D: Q.133 Ligands: ADP.7 No protein-ligand interaction detected (PLIP) MG.10: 2 residues within 4Å: Chain E: Q.133 Ligands: ADP.9 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, Z. et al., Structures from intact myofibrils reveal mechanism of thin filament regulation through nebulin. Science (2022)

Release Date

2022-02-16

Peptides

Actin, alpha skeletal muscle: ABCDE
nebulin (mouse): F
nebulin (mouse): G
tropomyosin, alpha-1 (mouse): H
tropomyosin, alpha-1 (mouse): I
tropomyosin, alpha-1 (mouse): JK
Myosin-4: LM

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

Actin, alpha skeletal muscle

nebulin (mouse)

nebulin (mouse)

tropomyosin, alpha-1 (mouse)

tropomyosin, alpha-1 (mouse)

tropomyosin, alpha-1 (mouse)

Myosin-4

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