MolNFT v1 · #181155 · protein + DNA + RNA
Tetrahymena telomerase T5D5 structure at 3.8 ångström
7LMB · Telomerase RNA: “Tetrahymena telomerase T5D5 structure at 3.8 ångström”. Electron microscopy, 1 ligand (ZN), 20 pockets (best druggability 0.87). MolNFT v1 #181155 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7LMB
- Type
- protein + DNA + RNA
- Length
- 1,999 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Telomerase RNA; Telomere DNA; Telomerase la-related protein P65; Telomerase reverse…
- EC
- 2.7.7.49
- UniProt
- W7X6T2, O77448, D2CVN6, A0A0U8TRG9, A0A0U8UFF4, D2CVN8
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 8 distinct chains · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Telomerase RNA | rna | 151 | — | — |
| C | Telomere DNA | dna | 11 | — | — |
| H | Telomerase la-related protein P65 | protein | 199 | 45% helix, 16% strand | W7X6T2 |
| A | Telomerase reverse transcriptase (EC 2.7.7.49) | protein | 1012 | 46% helix, 10% strand | O77448 |
| D | Telomerase holoenzyme TEB1 subunit | protein | 187 | 29% helix, 27% strand | D2CVN6 |
| E | Telomerase holoenzyme TEB2 subunit | protein | 147 | 31% helix, 31% strand | A0A0U8TRG9 |
| F | Telomerase holoenzyme TEB3 subunit | protein | 108 | 19% helix, 29% strand | A0A0U8UFF4 |
| G | Telomerase associated protein P50 | protein | 184 | 36% helix, 29% strand | D2CVN8 |
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, 15 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1021 | 0.87 | 0.89 | 132 | empty |
| 2 | 1159 | 0.82 | 0.84 | 88 | empty |
| 3 | 846 | 0.78 | 0.81 | 56 | empty |
| 4 | 956 | 0.77 | 0.79 | 78 | empty |
| 5 | 599 | 0.76 | 0.83 | 62 | empty |
Interfaces
13 interfaces between chains.
- B–A · 5142 Ų buried · 68 hydrogen bonds · protein-nucleic
- B–H · 1540 Ų buried · 20 hydrogen bonds · protein-nucleic
- E–F · 1419 Ų buried · 14 hydrogen bonds · protein-protein
- A–G · 1207 Ų buried · 12 hydrogen bonds · protein-protein
- D–E · 805 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7LMB · Tetrahymena telomerase T5D5 structure at 3.8 Angstrom · the same entry in another collection · chain G against G, 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 0.90
- O77448 · AlphaFold monomer V2.0 prediction for telomerase reverse transcriptase (O77448) · a predicted model of the same protein · chain A against A, TM-score 0.84
- W7X6T2 · AlphaFold monomer V2.0 prediction for la-related protein 7 homolog (W7X6T2) · a predicted model of the same protein · chain H against A, TM-score 0.52
- D2CVN8 · AlphaFold monomer V2.0 prediction for telomerase-associated protein of 50 kda (D2CVN8) · a predicted model of the same protein · chain G against A, TM-score 0.29
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 W7X6T2
- Every structure of UniProt O77448
- Every structure of UniProt D2CVN6
- Every structure of UniProt A0A0U8TRG9
- Every structure of UniProt A0A0U8UFF4
- Every structure of UniProt D2CVN8
- Elsewhere: RCSB PDB 7LMB · PDBe 7LMB · UniProt W7X6T2 · UniProt O77448 · UniProt D2CVN6 · UniProt A0A0U8TRG9 · UniProt A0A0U8UFF4 · UniProt D2CVN8
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