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Unique tetrameric structure of deoxyribose phosphate aldolase from aeropyrum pernix

Analyse Unique tetrameric structure of deoxyribose phosphate aldolase from aeropyrum… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1N7K
Type: protein
Length: 468 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Deoxyribose-phosphate aldolase
EC: 4.1.2.4
UniProt: Q9Y948
Pockets: 5 · best druggability 0.77

Structure

x-ray diffraction · 1 distinct chain · 54% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Deoxyribose-phosphate aldolase (EC 4.1.2.4)	protein	234	54% helix, 15% strand	Q9Y948

Pockets

5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	79	0.77	0.99	26	empty
2	184	0.55	0.80	23	empty
3	162	0.54	0.80	21	empty
4	58	0.32	0.76	14	empty
5	60	0.30	0.74	13	empty

Interfaces

1 interface between chains.

A–B · 1362 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

1N7K · Unique tetrameric structure of deoxyribose phosphate aldolase from Aeropyrum pernix · the same entry in another collection · chain A against A, TM-score 1.00
Q9Y948 · AlphaFold monomer V2.0 prediction for deoxyribose-phosphate aldolase (Q9Y948) · a predicted model of the same protein · chain B against A, TM-score 0.99

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 Q9Y948
Elsewhere: RCSB PDB 1N7K · PDBe 1N7K · UniProt Q9Y948

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