Research workbench
Cryoem structure of the interaction between rubisco activase small- subunit-like (ssul) domain with rubisco from nostoc sp. (strain PCC7120)
Analyse Cryoem structure of the interaction between rubisco activase small… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Z1G
- Type
- protein
- Length
- 1,168 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribulose bisphosphate CARBOXYLASE/OXYGENASE activase; Ribulose bisphosphate carboxylase…
- EC
- 4.1.1.39
- UniProt
- P58555, P00879, P06514
- Pockets
- 18 · best druggability 0.78
Structure
electron microscopy · 3 distinct chains · 36% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribulose bisphosphate CARBOXYLASE/OXYGENASE activase | protein | 86 | 34% helix, 31% strand | P58555 |
| B, C | Ribulose bisphosphate carboxylase large chain (EC 4.1.1.39) | protein | 435 | 39% helix, 18% strand | P00879 |
| D, E | Ribulose bisphosphate carboxylase small chain (EC 4.1.1.39) | protein | 106 | 25% helix, 26% strand | P06514 |
Pockets
18 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1178 | 0.78 | 0.80 | 92 | empty |
| 2 | 718 | 0.73 | 0.79 | 76 | empty |
| 3 | 289 | 0.60 | 0.79 | 34 | empty |
| 4 | 70 | 0.52 | 0.85 | 20 | empty |
| 5 | 54 | 0.48 | 0.85 | 17 | empty |
Interfaces
8 interfaces between chains.
- C–E · 1649 Ų buried · 20 hydrogen bonds · protein-protein
- B–D · 1616 Ų buried · 13 hydrogen bonds · protein-protein
- B–C · 482 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 431 Ų buried · 5 hydrogen bonds · protein-protein
- B–E · 357 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6Z1G · CryoEM structure of the interaction between Rubisco Activase small-subunit-like (SSUL)… · the same entry in another collection · chain E against E, TM-score 1.00
- P06514 · AlphaFold monomer V2.0 prediction for ribulose bisphosphate carboxylase small subunit… · a predicted model of the same protein · chain D against A, TM-score 0.98
- P00879 · AlphaFold monomer V2.0 prediction for ribulose bisphosphate carboxylase large chain… · a predicted model of the same protein · chain B against A, TM-score 0.98
- P58555 · AlphaFold monomer V2.0 prediction for ribulose bisphosphate CARBOXYLASE/OXYGENASE… · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P58555
- Every structure of UniProt P00879
- Every structure of UniProt P06514
- Elsewhere: RCSB PDB 6Z1G · PDBe 6Z1G · UniProt P58555 · UniProt P00879 · UniProt P06514
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