MolNFT v1 · #162559 · protein

PFRH5-binding monoclonal antibody R5.016

6RCS · R5.016 heavy chain: “PFRH5-binding monoclonal antibody R5.016”. X-ray diffraction, 1 ligand (SO4), 4 pockets (best druggability 0.59). MolNFT v1 #162559 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6RCS
Type: protein
Length: 423 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: R5.016 heavy chain; R5.016 light chain
Ligands: SO4
Pockets: 4 · best druggability 0.59

Structure

x-ray diffraction · 2 distinct chains · 7% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	R5.016 heavy chain	protein	226	9% helix, 52% strand	—
B	R5.016 light chain	protein	197	5% helix, 49% strand	—

Ligands and binding sites

SO4 · Sulfate ion · ion · chains A, B
ACT · Acetate ion · additive · 2 copies · chains A, B

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

Pockets

4 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	375	0.59	0.76	48	empty
2	60	0.54	0.88	21	empty
3	104	0.45	0.79	16	empty
4	103	0.44	0.78	26	SO4

Interfaces

1 interface between chains.

A–B · 2010 Å² buried · 17 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

6RCS · PfRH5-binding monoclonal antibody R5.016 · 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 6RCS · PDBe 6RCS

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