MolNFT v1 · #176716 · protein

Crystal structure of the computationally designed REDPBB_SYM4 protein

7DVH: “Crystal structure of the computationally designed REDPBB_SYM4 protein”. X-ray diffraction, 2 pockets (best druggability 0.72). MolNFT v1 #176716 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7DVH
Type: protein
Length: 355 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: REDPBB_SYM4 protein
Pockets: 2 · best druggability 0.72

Structure

x-ray diffraction · 3 distinct chains · 23% helix, 39% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	REDPBB_SYM4 protein	protein	86	23% helix, 38% strand	—
B, D	REDPBB_SYM4 protein	protein	91	22% helix, 38% strand	—
C	REDPBB_SYM4 protein	protein	87	23% helix, 39% strand	—

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	607	0.72	0.80	63	empty
2	195	0.59	0.81	32	empty

Interfaces

5 interfaces between chains.

A–D · 457 Å² buried · 6 hydrogen bonds · protein-protein
B–C · 451 Å² buried · 3 hydrogen bonds · protein-protein
A–B · 326 Å² buried · 6 hydrogen bonds · protein-protein
A–C · 227 Å² buried · 3 hydrogen bonds · protein-protein
B–D · 93 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

7DVH · Crystal structure of the computationally designed reDPBB_sym4 protein · 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
Elsewhere: RCSB PDB 7DVH · PDBe 7DVH

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