MolNFT v1 · #146081 · protein + DNA + RNA
Cryoem structure of tetrahymena telomerase with telomeric DNA at 4.8 ångström resolution
6D6V · Telomerase reverse transcriptase: “Cryoem structure of tetrahymena telomerase with telomeric DNA at 4.8 ångström resolution”. Electron microscopy, 1 ligand (ZN), 20 pockets (best druggability 0.88). MolNFT v1 #146081 on GenesisL1…
- 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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