Research workbench

Tetrameric form of smac

Analyse Tetrameric form of smac in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6JX6
Type: protein
Length: 600 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Diablo homolog, mitochondrial
UniProt: Q9NR28
Pockets: 6 · best druggability 0.76

Structure

x-ray diffraction · 4 distinct chains · 92% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Diablo homolog, mitochondrial	protein	153	92% helix, 0% strand	Q9NR28
B	Diablo homolog, mitochondrial	protein	150	91% helix, 0% strand	Q9NR28
C	Diablo homolog, mitochondrial	protein	149	95% helix, 1% strand	Q9NR28
D	Diablo homolog, mitochondrial	protein	148	90% helix, 0% strand	Q9NR28

Pockets

6 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	963	0.76	0.78	74	empty
2	881	0.73	0.77	71	empty
3	186	0.56	0.80	26	empty
4	83	0.40	0.78	15	empty
5	57	0.32	0.76	14	empty

Interfaces

4 interfaces between chains.

B–C · 910 Å² buried · 9 hydrogen bonds · protein-protein
A–D · 890 Å² buried · 15 hydrogen bonds · protein-protein
A–C · 574 Å² buried · 4 hydrogen bonds · protein-protein
A–B · 45 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

6JX6 · Tetrameric form of Smac · the same entry in another collection · chain D against D, TM-score 1.00
Q9NR28 · AlphaFold monomer V2.0 prediction for diablo homolog, mitochondrial (Q9NR28) · a predicted model of the same protein · chain C against A, TM-score 0.98

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 Q9NR28
Elsewhere: RCSB PDB 6JX6 · PDBe 6JX6 · UniProt Q9NR28

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