Research workbench
Crystal structure of human F-spondin reeler domain (fragment 1)
Analyse Crystal structure of human F-spondin reeler domain (fragment 1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZOT
- Type
- protein
- Length
- 561 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Spondin-1
- UniProt
- Q9HCB6
- Pockets
- 8 · best druggability 0.60
Structure
x-ray diffraction · 4 distinct chains · 0% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Spondin-1 | protein | 138 | 0% helix, 45% strand | Q9HCB6 |
| B | Spondin-1 | protein | 142 | 0% helix, 38% strand | Q9HCB6 |
| C | Spondin-1 | protein | 140 | 0% helix, 46% strand | Q9HCB6 |
| D | Spondin-1 | protein | 141 | 0% helix, 43% strand | Q9HCB6 |
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 185 | 0.60 | 0.82 | 34 | empty |
| 2 | 244 | 0.57 | 0.79 | 25 | empty |
| 3 | 163 | 0.49 | 0.77 | 32 | empty |
| 4 | 103 | 0.45 | 0.79 | 24 | empty |
| 5 | 115 | 0.35 | 0.73 | 17 | empty |
Interfaces
3 interfaces between chains.
- B–D · 400 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 364 Ų buried · 6 hydrogen bonds · protein-protein
- C–D · 359 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
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 Q9HCB6
- Elsewhere: RCSB PDB 2ZOT · PDBe 2ZOT · UniProt Q9HCB6
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