MolNFT v1 · #18191 · protein + DNA
Crystal structure of the oxytricha nova telomere end- binding protein complexed with noncognate ssdna ggggttttggggt
1PH1 · 5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*T)-3': “Crystal structure of the oxytricha nova telomere end- binding protein complexed with noncognate ssdna…”. X-ray diffraction, 10 pockets (best druggability 0.83). MolNFT v1 #18191 on…
- PDB
- 1PH1
- Type
- protein + DNA
- Length
- 712 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*T)-3'; Telomere-binding protein alpha subunit…
- UniProt
- P29549, P16458
- Pockets
- 10 · best druggability 0.83
Structure
x-ray diffraction · 3 distinct chains · 23% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G, D, H | 5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*GP*T)-3' | dna | 13 | — | — |
| A | Telomere-binding protein alpha subunit | protein | 456 | 19% helix, 38% strand | P29549 |
| B | Telomere-binding protein beta subunit | protein | 217 | 32% helix, 23% strand | P16458 |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 467 | 0.83 | 0.90 | 54 | empty |
| 2 | 518 | 0.69 | 0.79 | 54 | empty |
| 3 | 536 | 0.61 | 0.75 | 52 | empty |
| 4 | 151 | 0.52 | 0.79 | 23 | empty |
| 5 | 146 | 0.43 | 0.75 | 32 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2696 Ų buried · 41 hydrogen bonds · protein-protein
- D–A · 1324 Ų buried · 37 hydrogen bonds · protein-nucleic
- G–H · 950 Ų buried · 81 hydrogen bonds · nucleic-nucleic
- D–B · 409 Ų buried · 12 hydrogen bonds · protein-nucleic
- G–A · 197 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 1PH1 · Crystal structure of the oxytricha nova telomere end-binding protein complexed with… · the same entry in another collection · chain D against D, TM-score 1.00
- P29549 · AlphaFold monomer V2.0 prediction for telomere-binding protein subunit alpha (P29549) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P16458 · AlphaFold monomer V2.0 prediction for telomere-binding protein subunit beta (P16458) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P29549
- Every structure of UniProt P16458
- Elsewhere: RCSB PDB 1PH1 · PDBe 1PH1 · UniProt P29549 · UniProt P16458
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