MolNFT v1 · #92614 · protein

Structure of a fragment of the rod domain of plectin

4GDO: “Structure of a fragment of the rod domain of plectin”. X-ray diffraction, 3 pockets (best druggability 0.51). MolNFT v1 #92614 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4GDO
Type: protein
Length: 223 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Plectin
UniProt: Q15149
Pockets: 3 · best druggability 0.51

Structure

x-ray diffraction · 5 distinct chains · 88% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Plectin	protein	42	83% helix, 0% strand	Q15149
B, D	Plectin	protein	41	85% helix, 0% strand	Q15149
C	Plectin	protein	38	89% helix, 0% strand	Q15149
E	Plectin	protein	31	94% helix, 0% strand	Q15149
F	Plectin	protein	30	93% helix, 0% strand	Q15149

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	218	0.51	0.76	39	empty
2	75	0.36	0.76	15	empty
3	61	0.28	0.74	15	empty

Interfaces

10 interfaces between chains.

A–B · 976 Å² buried · 4 hydrogen bonds · protein-protein
C–D · 898 Å² buried · 8 hydrogen bonds · protein-protein
E–F · 514 Å² buried · 1 hydrogen bond · protein-protein
A–D · 476 Å² buried · 5 hydrogen bonds · protein-protein
A–C · 426 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

4GDO · Structure of a fragment of the rod domain of plectin · 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 Q15149
Elsewhere: RCSB PDB 4GDO · PDBe 4GDO · UniProt Q15149

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