Research workbench
Pii-like protein cuta from nostoc sp. PCC7120 in complex with mes
Analyse Pii-like protein cuta from nostoc sp. PCC7120 in complex with mes in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6T7E
- Type
- protein
- Length
- 615 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periplasmic divalent cation tolerance protein
- UniProt
- Q8YL42
- Pockets
- 7 · best druggability 0.70
Structure
x-ray diffraction · 4 distinct chains · 35% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Periplasmic divalent cation tolerance protein | protein | 102 | 33% helix, 37% strand | Q8YL42 |
| B | Periplasmic divalent cation tolerance protein | protein | 103 | 36% helix, 37% strand | Q8YL42 |
| D, E | Periplasmic divalent cation tolerance protein | protein | 104 | 36% helix, 36% strand | Q8YL42 |
| F | Periplasmic divalent cation tolerance protein | protein | 100 | 34% helix, 31% strand | Q8YL42 |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 4 copies · chains A, B, C, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 871 | 0.70 | 0.75 | 83 | empty |
| 2 | 291 | 0.64 | 0.81 | 33 | empty |
| 3 | 122 | 0.54 | 0.82 | 18 | empty |
| 4 | 120 | 0.53 | 0.82 | 20 | empty |
| 5 | 124 | 0.52 | 0.81 | 19 | empty |
Interfaces
8 interfaces between chains.
- A–B · 368 Ų buried · 7 hydrogen bonds · protein-protein
- E–F · 281 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 278 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 266 Ų buried · 1 hydrogen bond · protein-protein
- A–E · 111 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6T7E · PII-like protein CutA from Nostoc sp. PCC7120 in complex with MES · the same entry in another collection · chain A against A, 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 Q8YL42
- Elsewhere: RCSB PDB 6T7E · PDBe 6T7E · UniProt Q8YL42
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