MolNFT v1 · #121625 · protein

Crystal structure of the single domain catalytic antibody 3D8-vh

5I0Z · Catalytic DNA antibody: “Crystal structure of the single domain catalytic antibody 3D8-vh”. X-ray diffraction, 3 pockets (best druggability 0.48). MolNFT v1 #121625 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5I0Z
Type: protein
Length: 240 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Catalytic DNA antibody
Pockets: 3 · best druggability 0.48

Structure

x-ray diffraction · 1 distinct chain · 10% helix, 52% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Catalytic DNA antibody	protein	120	10% helix, 52% strand	—

Pockets

3 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	128	0.48	0.79	27	empty
2	90	0.44	0.80	21	empty
3	124	0.38	0.73	18	empty

Interfaces

1 interface between chains.

A–B · 622 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

5I0Z · Crystal structure of the single domain catalytic antibody 3D8-VH · 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 5I0Z · PDBe 5I0Z

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