Research workbench

Caspase-11 C254A P22/P10 in complex with mouse gsdmd-C domain

Analyse Caspase-11 C254A P22/P10 in complex with mouse gsdmd-C domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6KMV
Type: protein
Length: 7,156 residues
Chains: 48
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Caspase-4; Gasdermin-D
EC: 3.4.22.64
UniProt: P70343, Q9D8T2
Pockets: 20 · best druggability 0.78

Structure

x-ray diffraction · 16 distinct chains · 46% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Caspase-4 (EC 3.4.22.64)	protein	161	26% helix, 24% strand	P70343
B, V	Caspase-4 (EC 3.4.22.64)	protein	167	31% helix, 23% strand	P70343
C, G, O	Gasdermin-D	protein	198	63% helix, 7% strand	Q9D8T2
D, K, S, T, W, f	Gasdermin-D	protein	197	63% helix, 7% strand	Q9D8T2
E, F, Z, d	Caspase-4 (EC 3.4.22.64)	protein	166	31% helix, 23% strand	P70343
H	Gasdermin-D	protein	171	59% helix, 8% strand	Q9D8T2
I, M, N, Q, Y	Caspase-4 (EC 3.4.22.64)	protein	165	32% helix, 22% strand	P70343
J	Caspase-4 (EC 3.4.22.64)	protein	149	28% helix, 26% strand	P70343
L, P, e	Gasdermin-D	protein	214	57% helix, 5% strand	Q9D8T2
R, c	Caspase-4 (EC 3.4.22.64)	protein	150	28% helix, 25% strand	P70343
U	Caspase-4 (EC 3.4.22.64)	protein	165	32% helix, 22% strand	P70343
X	Gasdermin-D	protein	199	63% helix, 7% strand	Q9D8T2
a	Gasdermin-D	protein	183	66% helix, 5% strand	Q9D8T2
b	Gasdermin-D	protein	180	67% helix, 3% strand	Q9D8T2
g, h, i, j, k, l, m, n, o, p, q, r, t, u, v	Caspase-4 (EC 3.4.22.64)	protein	88	27% helix, 23% strand	P70343
s	Caspase-4 (EC 3.4.22.64)	protein	87	28% helix, 22% strand	P70343

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	837	0.78	0.81	96	empty
2	276	0.78	0.90	25	empty
3	281	0.77	0.89	25	empty
4	251	0.77	0.90	24	empty
5	273	0.76	0.89	24	empty

Interfaces

180 interfaces between chains.

U–q · 2816 Å² buried · 45 hydrogen bonds · protein-protein
I–k · 2809 Å² buried · 41 hydrogen bonds · protein-protein
Q–o · 2798 Å² buried · 43 hydrogen bonds · protein-protein
Y–s · 2786 Å² buried · 46 hydrogen bonds · protein-protein
E–i · 2766 Å² buried · 46 hydrogen bonds · protein-protein

Compared structures

6KMV · caspase-11 C254A P22/P10 in complex with mouse GSDMD-C domain · the same entry in another collection · chain K against K, 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 P70343
Every structure of UniProt Q9D8T2
Elsewhere: RCSB PDB 6KMV · PDBe 6KMV · UniProt P70343 · UniProt Q9D8T2

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