MolNFT v1 · #28765 · protein + DNA
Analysis of the 2.0A crystal structure of the protein-DNA complex of human pdef ets domain bound to the prostate specific antigen regulatory site
1YO5 · Enhancer site of prostate specific antigen promoter region: “Analysis of the 2.0A crystal structure of the protein-DNA complex of human pdef ets domain bound to the…”. X-ray diffraction, 3 pockets (best druggability 0.43). MolNFT v1…
- PDB
- 1YO5
- Type
- protein + DNA
- Length
- 114 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Enhancer site of prostate specific antigen promoter region; SAM pointed domain containing…
- UniProt
- O95238
- Pockets
- 3 · best druggability 0.43
Structure
x-ray diffraction · 3 distinct chains · 41% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Enhancer site of prostate specific antigen promoter region | dna | 13 | — | — |
| B | Enhancer site of prostate specific antigen promoter region | dna | 13 | — | — |
| C | SAM pointed domain containing ets transcription factor | protein | 88 | 41% helix, 17% strand | O95238 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 117 | 0.43 | 0.77 | 20 | empty |
| 2 | 104 | 0.41 | 0.77 | 14 | empty |
| 3 | 51 | 0.29 | 0.76 | 16 | empty |
Interfaces
3 interfaces between chains.
- A–B · 578 Ų buried · 47 hydrogen bonds · nucleic-nucleic
- B–C · 518 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–C · 511 Ų buried · 16 hydrogen bonds · protein-nucleic
Compared structures
- 1YO5 · Analysis of the 2.0A crystal structure of the protein-DNA complex of human PDEF Ets… · the same entry in another collection · chain A against A, TM-score 1.00
- O95238 · AlphaFold monomer V2.0 prediction for SAM pointed domain-containing ets transcription… · a predicted model of the same protein · chain C against A, TM-score 0.98
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 O95238
- Elsewhere: RCSB PDB 1YO5 · PDBe 1YO5 · UniProt O95238
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