MolNFT v1 · #166005 · protein

Spectroscopic and structural characterization of a genetically encoded direct sensor for protein-ligand interactions

6UD1 · Streptavidin: “Spectroscopic and structural characterization of a genetically encoded direct sensor for protein-ligand…”. X-ray diffraction, 1 ligand (CL), 2 pockets (best druggability 0.32). MolNFT v1 #166005 on GenesisL1: 3D…

PDB: 6UD1
Type: protein
Length: 242 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Streptavidin
UniProt: P22629
Ligands: CL
Pockets: 2 · best druggability 0.32

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 55% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Streptavidin	protein	120	8% helix, 56% strand	P22629
B	Streptavidin	protein	122	7% helix, 55% strand	P22629

Ligands and binding sites

CL · Chloride ion · ion · 2 copies · chains A, B

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

Pockets

2 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	60	0.32	0.76	18	empty
2	59	0.29	0.75	19	empty

Interfaces

1 interface between chains.

A–B · 1623 Å² buried · 27 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 modified (nonstandard).

Compared structures

6UD1 · Spectroscopic and structural characterization of a genetically encoded direct sensor for… · 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 6UD1 · PDBe 6UD1 · UniProt P22629

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