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Crystal structure of the rat mlkl pseudokinase domain

Analyse Crystal structure of the rat mlkl pseudokinase domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6VBZ
Type: protein
Length: 512 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Mixed lineage kinase domain-like pseudokinase
UniProt: D3ZKP6
Ligands: MN
Pockets: 7 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 40% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Mixed lineage kinase domain-like pseudokinase	protein	256	40% helix, 17% strand	D3ZKP6
B	Mixed lineage kinase domain-like pseudokinase	protein	256	41% helix, 17% strand	D3ZKP6

Ligands and binding sites

MN · Manganese (II) ion · metal · 6 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	219	0.76	0.90	32	empty
2	380	0.64	0.78	34	empty
3	380	0.61	0.77	37	empty
4	121	0.52	0.81	20	empty
5	68	0.36	0.77	15	empty

Interfaces

1 interface between chains.

A–B · 1307 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

6VBZ · Crystal structure of the rat MLKL pseudokinase domain · 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 D3ZKP6
Elsewhere: RCSB PDB 6VBZ · PDBe 6VBZ · UniProt D3ZKP6

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