Research workbench
Cryo-EM structure of RBCL8-RBCS4 from anabaena sp. pcc 7120
Analyse Cryo-EM structure of RBCL8-RBCS4 from anabaena sp. pcc 7120 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6LRS
- Type
- protein
- Length
- 3,832 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribulose bisphosphate carboxylase small chain; Ribulose bisphosphate carboxylase large…
- EC
- 4.1.1.39
- UniProt
- P06514, P00879
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 3 distinct chains · 30% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T, S, R, Q | Ribulose bisphosphate carboxylase small chain (EC 4.1.1.39) | protein | 106 | 18% helix, 14% strand | P06514 |
| G, E, C, A | Ribulose bisphosphate carboxylase large chain (EC 4.1.1.39) | protein | 413 | 30% helix, 17% strand | P00879 |
| H, F, D, B | Ribulose bisphosphate carboxylase large chain (EC 4.1.1.39) | protein | 439 | 32% helix, 16% strand | P00879 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 322 | 0.83 | 0.93 | 59 | empty |
| 2 | 308 | 0.82 | 0.93 | 61 | empty |
| 3 | 282 | 0.82 | 0.93 | 55 | empty |
| 4 | 746 | 0.82 | 0.85 | 90 | empty |
| 5 | 244 | 0.81 | 0.93 | 46 | empty |
Interfaces
32 interfaces between chains.
- C–D · 3475 Ų buried · 49 hydrogen bonds · protein-protein
- A–B · 3472 Ų buried · 47 hydrogen bonds · protein-protein
- G–H · 3471 Ų buried · 48 hydrogen bonds · protein-protein
- E–F · 3468 Ų buried · 47 hydrogen bonds · protein-protein
- R–D · 1631 Ų buried · 25 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6LRS · Cryo-EM structure of RbcL8-RbcS4 from Anabaena sp. PCC 7120 · the same entry in another collection · chain B against B, TM-score 1.00
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 P06514
- Every structure of UniProt P00879
- Elsewhere: RCSB PDB 6LRS · PDBe 6LRS · UniProt P06514 · UniProt P00879
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