Research workbench
The O. nova telomere end binding protein complexed with single strand DNA
Analyse The O. nova telomere end binding protein complexed with single strand DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OTC
- Type
- protein + DNA
- Length
- 684 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3'); Protein (telomere-binding protein…
- UniProt
- P29549, P16458
- Pockets
- 6 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 21% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | DNA (5'-D(*GP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*G)-3') | dna | 12 | — | — |
| A | Protein (telomere-binding protein alpha subunit) | protein | 459 | 18% helix, 36% strand | P29549 |
| B | Protein (telomere-binding protein beta subunit) | protein | 213 | 28% helix, 19% strand | P16458 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 504 | 0.82 | 0.89 | 54 | empty |
| 2 | 460 | 0.64 | 0.77 | 50 | empty |
| 3 | 152 | 0.47 | 0.77 | 19 | empty |
| 4 | 76 | 0.38 | 0.77 | 17 | empty |
| 5 | 73 | 0.35 | 0.77 | 15 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2801 Ų buried · 44 hydrogen bonds · protein-protein
- D–A · 1281 Ų buried · 37 hydrogen bonds · protein-nucleic
- D–B · 398 Ų buried · 11 hydrogen bonds · protein-nucleic
Compared structures
- 1OTC · The O. nova telomere end binding protein complexed with single strand DNA · 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 0.98
- 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 0.98
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 P29549
- Every structure of UniProt P16458
- Elsewhere: RCSB PDB 1OTC · PDBe 1OTC · UniProt P29549 · UniProt P16458
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