Research workbench

Tetrahymena telomerase T3D2 structure at 3.3 ångström

Analyse Tetrahymena telomerase T3D2 structure at 3.3 ångström in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7LMA
Type: protein + DNA + RNA
Length: 2,007 residues
Chains: 8
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Telomerase la-related protein P65; Telomerase reverse transcriptase; Telomerase…
EC: 2.7.7.49
UniProt: W7X6T2, O77448, D2CVN6, A0A0U8TRG9, A0A0U8UFF4, D2CVN8
Ligands: ZN
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 8 distinct chains · 40% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	Telomerase la-related protein P65	protein	199	44% helix, 18% strand	W7X6T2
A	Telomerase reverse transcriptase (EC 2.7.7.49)	protein	1012	46% helix, 12% strand	O77448
D	Telomerase holoenzyme TEB1 subunit	protein	187	29% helix, 28% strand	D2CVN6
E	Telomerase holoenzyme TEB2 subunit	protein	147	32% helix, 22% strand	A0A0U8TRG9
F	Telomerase holoenzyme TEB3 subunit	protein	108	19% helix, 33% strand	A0A0U8UFF4
G	Telomerase associated protein P50	protein	184	34% helix, 32% strand	D2CVN8
B	Telomerase RNA	rna	156	—	—
C	Telomere DNA	dna	14	—	—

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	991	0.85	0.86	121	empty
2	560	0.75	0.82	54	empty
3	435	0.74	0.84	38	empty
4	457	0.74	0.84	54	empty
5	116	0.74	0.94	28	empty

Interfaces

13 interfaces between chains.

A–B · 5659 Å² buried · 86 hydrogen bonds · protein-nucleic
H–B · 1655 Å² buried · 29 hydrogen bonds · protein-nucleic
E–F · 1460 Å² buried · 15 hydrogen bonds · protein-protein
A–G · 1227 Å² buried · 11 hydrogen bonds · protein-protein
D–E · 852 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

7LMA · Tetrahymena telomerase T3D2 structure at 3.3 Angstrom · the same entry in another collection · chain C against C, 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 0.92
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 0.53
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 7LMA · PDBe 7LMA · UniProt W7X6T2 · UniProt O77448 · UniProt D2CVN6 · UniProt A0A0U8TRG9 · UniProt A0A0U8UFF4 · UniProt D2CVN8

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