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Water-soluble Chlorophyll Protein (WSCP) from Lepidium virginicum (Mutation L91P) with Chlorophyll-b
Analyse Water-soluble Chlorophyll Protein (WSCP) from Lepidium virginicum (Mutation… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GIX
- Type
- protein
- Length
- 639 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.8
- Source
- Lepidium virginicum
- Molecule
- Water-soluble chlorophyll protein
- UniProt
- O04797
- Ligands
- CHL
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · resolution 2.8 · 4 distinct chains · 2% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Water-soluble chlorophyll protein | protein | 157 | 2% helix, 42% strand | O04797 |
| B | Water-soluble chlorophyll protein | protein | 158 | 2% helix, 39% strand | O04797 |
| C | Water-soluble chlorophyll protein | protein | 161 | 2% helix, 41% strand | O04797 |
| D | Water-soluble chlorophyll protein | protein | 163 | 2% helix, 40% strand | O04797 |
Ligands and binding sites
- CHL · Chlorophyll B · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 742 | 0.76 | 0.80 | 50 | CHL |
| 2 | 762 | 0.76 | 0.80 | 52 | CHL |
| 3 | 179 | 0.42 | 0.73 | 33 | empty |
| 4 | 168 | 0.41 | 0.73 | 30 | empty |
Interfaces
6 interfaces between chains.
- C–D · 601 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 581 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 388 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 377 Ų buried · 2 hydrogen bonds · protein-protein
- B–D · 151 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6GIX · Water-soluble chlorophyll protein (wscp) from lepidium virginicum (mutation L91P) with… · 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 O04797
- Elsewhere: RCSB PDB 6GIX · PDBe 6GIX · UniProt O04797
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