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Structure of nuclear RNA export factor tap bound to cte RNA

Analyse Structure of nuclear RNA export factor tap bound to cte RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3RW6
Type: protein + RNA
Length: 613 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nuclear RNA export factor 1; Constitutive transport ELEMENT(CTE)OF mason-pfizer monkey…
UniProt: Q9UBU9
Pockets: 10 · best druggability 0.70

Structure

x-ray diffraction · 3 distinct chains · 37% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nuclear RNA export factor 1	protein	245	36% helix, 16% strand	Q9UBU9
H, F	Constitutive transport ELEMENT(CTE)OF mason-pfizer monkey virus RNA	rna	62	—	—
B	Nuclear RNA export factor 1	protein	244	37% helix, 18% strand	Q9UBU9

Pockets

10 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	755	0.70	0.78	42	empty
2	620	0.69	0.79	33	empty
3	689	0.69	0.78	34	empty
4	777	0.67	0.76	36	empty
5	296	0.56	0.77	26	empty

Interfaces

4 interfaces between chains.

A–H · 1404 Å² buried · 19 hydrogen bonds · protein-nucleic
F–B · 1391 Å² buried · 15 hydrogen bonds · protein-nucleic
H–F · 237 Å² buried · 7 hydrogen bonds · nucleic-nucleic
A–B · 24 Å² buried · 0 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 modified (nucleotide modification).

Compared structures

3RW6 · Structure of nuclear RNA export factor TAP bound to CTE RNA · the same entry in another collection · chain A against A, TM-score 1.00
Q9UBU9 · AlphaFold monomer V2.0 prediction for nuclear RNA export factor 1 (Q9UBU9) · a predicted model of the same protein · chain B against A, TM-score 0.94

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 Q9UBU9
Elsewhere: RCSB PDB 3RW6 · PDBe 3RW6 · UniProt Q9UBU9

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