MolNFT v1 · #129597 · protein

Designed ankyrin repeat protein (darpin) A4 in complex with lysozyme

5OP1 · Darpin A4: “Designed ankyrin repeat protein (darpin) A4 in complex with lysozyme”. X-ray diffraction, 1 ligand (CL), 2 pockets (best druggability 0.73). MolNFT v1 #129597 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5OP1
Type: protein
Length: 282 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Darpin A4; Lysozyme C
EC: 3.2.1.17
UniProt: P00698
Ligands: CL
Pockets: 2 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains · 47% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Darpin A4	protein	155	52% helix, 0% strand	—
B	Lysozyme C (EC 3.2.1.17)	protein	127	41% helix, 9% strand	P00698

Ligands and binding sites

CL · Chloride ion · ion · chains 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, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	93	0.73	0.95	19	empty
2	286	0.56	0.76	33	empty

Interfaces

1 interface between chains.

A–B · 916 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5OP1 · Designed Ankyrin Repeat Protein (DARPin) A4 in complex with Lysozyme · 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 P00698
Elsewhere: RCSB PDB 5OP1 · PDBe 5OP1 · UniProt P00698

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