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Trans-divalent streptavidin bound to biotin-4-fluorescein

Analyse Trans-divalent streptavidin bound to biotin-4-fluorescein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4BX7
Type: protein
Length: 237 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Streptavidin
UniProt: P22629
Ligands: B4F
Pockets: 4 · best druggability 0.46

Structure

x-ray diffraction · 2 distinct chains · 6% helix, 57% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Streptavidin	protein	119	8% helix, 57% strand	P22629
B	Streptavidin	protein	118	5% helix, 58% strand	P22629

Ligands and binding sites

B4F · biotin-4-fluorescein · ligand · chains B
MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains A

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

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	83	0.46	0.81	19	empty
2	72	0.31	0.74	15	MPD
3	50	0.30	0.77	18	empty
4	51	0.27	0.75	18	empty

Interfaces

1 interface between chains.

A–B · 1610 Å² buried · 24 hydrogen bonds · protein-protein

Compared structures

4BX7 · trans-divalent streptavidin bound to biotin-4-fluorescein · 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 4BX7 · PDBe 4BX7 · UniProt P22629

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