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Crystal structure of DDB1
Analyse Crystal structure of DDB1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2B5M
- Type
- protein
- Length
- 1,119 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Damage-specific DNA binding protein 1
- Pockets
- 16 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 5% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Damage-specific DNA binding protein 1 | protein | 1119 | 5% helix, 45% strand | — |
Pockets
16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 880 | 0.79 | 0.82 | 84 | empty |
| 2 | 968 | 0.78 | 0.80 | 65 | empty |
| 3 | 734 | 0.75 | 0.80 | 58 | empty |
| 4 | 664 | 0.70 | 0.77 | 40 | empty |
| 5 | 50 | 0.68 | 0.97 | 21 | empty |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 2B5M · Crystal Structure of DDB1 · 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
- Elsewhere: RCSB PDB 2B5M · PDBe 2B5M
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