Research workbench

Streptavidin mutant N23A with biotin at 1.89A

Analyse Streptavidin mutant N23A with biotin at 1.89A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1N43
Type: protein
Length: 471 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Streptavidin
UniProt: P22629
Ligands: BTN
Pockets: 6 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 56% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Streptavidin	protein	117	5% helix, 57% strand	P22629
B, C, D	Streptavidin	protein	118	5% helix, 55% strand	P22629

Ligands and binding sites

BTN · Biotin · ligand · 4 copies · chains A, D, B, C

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

Pockets

6 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	266	0.68	0.83	46	BTN
2	331	0.63	0.79	46	empty
3	93	0.60	0.87	21	BTN
4	126	0.59	0.84	26	BTN
5	173	0.53	0.79	26	empty

Interfaces

6 interfaces between chains.

C–D · 1658 Å² buried · 33 hydrogen bonds · protein-protein
A–B · 1634 Å² buried · 30 hydrogen bonds · protein-protein
A–D · 548 Å² buried · 3 hydrogen bonds · protein-protein
B–C · 539 Å² buried · 3 hydrogen bonds · protein-protein
A–C · 210 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

1N43 · Streptavidin Mutant N23A with biotin at 1.89A · 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 1N43 · PDBe 1N43 · UniProt P22629

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