MolNFT v1 · #177495 · protein

Crystal structure of apo streptavidin at ambient temperature

7EK8: “Crystal structure of apo streptavidin at ambient temperature”. X-ray diffraction, 4 pockets (best druggability 0.67). MolNFT v1 #177495 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7EK8
Type: protein
Length: 482 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Streptavidin
UniProt: P22629
Pockets: 4 · best druggability 0.67

Structure

x-ray diffraction · 3 distinct chains · 6% helix, 56% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Streptavidin	protein	121	5% helix, 55% strand	P22629
B	Streptavidin	protein	121	7% helix, 56% strand	P22629
C, D	Streptavidin	protein	120	5% helix, 56% strand	P22629

Pockets

4 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	328	0.67	0.81	51	empty
2	357	0.62	0.78	36	empty
3	381	0.62	0.78	44	empty
4	413	0.62	0.77	45	empty

Interfaces

6 interfaces between chains.

A–B · 1640 Å² buried · 21 hydrogen bonds · protein-protein
C–D · 1528 Å² buried · 19 hydrogen bonds · protein-protein
A–D · 463 Å² buried · 2 hydrogen bonds · protein-protein
B–C · 401 Å² buried · 2 hydrogen bonds · protein-protein
A–C · 204 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

7EK8 · Crystal structure of apo streptavidin at ambient temperature · 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 P22629
Elsewhere: RCSB PDB 7EK8 · PDBe 7EK8 · UniProt P22629

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.