Research workbench
Cryoem structure of tetrahymena telomerase with telomeric DNA at 4.8 ångström resolution
Analyse Cryoem structure of tetrahymena telomerase with telomeric DNA at 4.8 ångström… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6D6V
- Type
- protein + DNA + RNA
- Length
- 1,870 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Telomerase reverse transcriptase; Telomerase-associated protein 82; Telomerase holoenzyme…
- EC
- 2.7.7.49
- UniProt
- O77448, D2CVN6, A0A0U8UFF4, A0A0U8TRG9, Q6JXI6
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 8 distinct chains · 41% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Telomerase reverse transcriptase (EC 2.7.7.49) | protein | 980 | 48% helix, 8% strand | O77448 |
| D | Telomerase-associated protein 82 | protein | 185 | 29% helix, 30% strand | D2CVN6 |
| F | Telomerase holoenzyme teb heterotrimer TEB3 subunit | protein | 113 | 19% helix, 27% strand | A0A0U8UFF4 |
| E | Telomerase holoenzyme TEB2 subunit | protein | 149 | 31% helix, 32% strand | A0A0U8TRG9 |
| B | RNA (159-mer) | rna | 159 | — | — |
| C | DNA (5'- D(P*GP*TP*TP*GP*GP*GP*GP*TP*TP*GP*GP*GP*GP*TP*TP*GP*GP*GP*G)-3') | dna | 19 | — | — |
| G | Telomerase-associated protein 50 | protein | 157 | 32% helix, 8% strand | — |
| H | Telomerase associated protein P65 | protein | 108 | 44% helix, 28% strand | Q6JXI6 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1173 | 0.88 | 0.89 | 143 | empty |
| 2 | 471 | 0.86 | 0.93 | 71 | empty |
| 3 | 866 | 0.81 | 0.83 | 107 | empty |
| 4 | 225 | 0.79 | 0.92 | 37 | empty |
| 5 | 201 | 0.79 | 0.93 | 40 | empty |
Interfaces
14 interfaces between chains.
- A–B · 5240 Ų buried · 143 hydrogen bonds · protein-nucleic
- F–E · 1078 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 1005 Ų buried · 20 hydrogen bonds · protein-nucleic
- B–H · 897 Ų buried · 19 hydrogen bonds · protein-nucleic
- D–C · 881 Ų buried · 29 hydrogen bonds · protein-nucleic
Compared structures
- 6D6V · CryoEM structure of Tetrahymena telomerase with telomeric DNA at 4.8 Angstrom resolution · the same entry in another collection · chain H against H, TM-score 1.00
- D2CVN6 · AlphaFold monomer V2.0 prediction for telomeric repeat-binding subunit 1 (D2CVN6) · a predicted model of the same protein · chain D against A, TM-score 0.86
- O77448 · AlphaFold monomer V2.0 prediction for telomerase reverse transcriptase (O77448) · a predicted model of the same protein · chain A against A, TM-score 0.82
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 O77448
- Every structure of UniProt D2CVN6
- Every structure of UniProt A0A0U8UFF4
- Every structure of UniProt A0A0U8TRG9
- Every structure of UniProt Q6JXI6
- Elsewhere: RCSB PDB 6D6V · PDBe 6D6V · UniProt O77448 · UniProt D2CVN6 · UniProt A0A0U8UFF4 · UniProt A0A0U8TRG9 · UniProt Q6JXI6
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