Research workbench
Cryo-EM structure of the heavy meromyosin subfragment of chicken gizzard smooth muscle myosin with regulatory light chain in the dephosphorylated state. only C alphas provided for regulatory light chain. only backbone atoms provided for S2 fragment.
Analyse Cryo-EM structure of the heavy meromyosin subfragment of chicken gizzard smooth… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1I84
- Type
- protein
- Length
- 2,390 residues
- Chains
- 6
- Method
- electron crystallography
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Smooth muscle myosin heavy chain; Smooth muscle myosin essential light chain; Smooth…
- EC
- 3.6.1.32
- UniProt
- P10587, P02609
- Pockets
- 20 · best druggability 0.77
Structure
electron crystallography · 3 distinct chains · 43% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| S, V | Smooth muscle myosin heavy chain (EC 3.6.1.32) | protein | 909 | 49% helix, 11% strand | P10587 |
| T, W | Smooth muscle myosin essential light chain | protein | 148 | 50% helix, 3% strand | — |
| U, Z | Smooth muscle myosin regulatory light chain | protein | 138 | 0% helix, 0% strand | P02609 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1146 | 0.77 | 0.79 | 76 | empty |
| 2 | 779 | 0.76 | 0.81 | 65 | empty |
| 3 | 801 | 0.76 | 0.80 | 68 | empty |
| 4 | 280 | 0.74 | 0.87 | 35 | empty |
| 5 | 422 | 0.73 | 0.83 | 58 | empty |
Interfaces
8 interfaces between chains.
- V–W · 2175 Ų buried · 20 hydrogen bonds · protein-protein
- S–V · 1743 Ų buried · 61 hydrogen bonds · protein-protein
- S–T · 1388 Ų buried · 16 hydrogen bonds · protein-protein
- S–U · 891 Ų buried · 0 hydrogen bonds · protein-protein
- V–Z · 879 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 modified (methylation).
Compared structures
- 1I84 · Cryo-EM structure of the heavy meromyosin subfragment of chicken gizzard smooth muscle… · the same entry in another collection · chain Z against Z, TM-score 1.00
- P10587 · AlphaFold monomer V2.0 prediction for myosin-11 (P10587) · a predicted model of the same protein · chain S against A, TM-score 0.85
- P02609 · AlphaFold monomer V2.0 prediction for myosin regulatory light chain 2, skeletal muscle… · a predicted model of the same protein · chain U against A, TM-score 0.84
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P10587
- Every structure of UniProt P02609
- Elsewhere: RCSB PDB 1I84 · PDBe 1I84 · UniProt P10587 · UniProt P02609
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