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Structure of dicer from pichia stipitis

Analyse Structure of dicer from pichia stipitis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7DEY
Type: protein
Length: 816 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNase III
UniProt: A3LS79
Pockets: 11 · best druggability 0.70

Structure

x-ray diffraction · 4 distinct chains · 55% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNase III	protein	203	55% helix, 9% strand	A3LS79
B	RNase III	protein	199	56% helix, 12% strand	A3LS79
C	RNase III	protein	207	55% helix, 9% strand	A3LS79
D	RNase III	protein	207	55% helix, 8% strand	A3LS79

Pockets

11 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	390	0.70	0.82	45	empty
2	112	0.70	0.92	24	empty
3	263	0.67	0.83	39	empty
4	229	0.66	0.84	46	empty
5	98	0.53	0.84	31	empty

Interfaces

4 interfaces between chains.

A–C · 1901 Å² buried · 21 hydrogen bonds · protein-protein
B–D · 1688 Å² buried · 17 hydrogen bonds · protein-protein
A–D · 421 Å² buried · 3 hydrogen bonds · protein-protein
A–B · 268 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

7DEY · Structure of Dicer from Pichia stipitis · the same entry in another collection · chain A against A, TM-score 1.00

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 A3LS79
Elsewhere: RCSB PDB 7DEY · PDBe 7DEY · UniProt A3LS79

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