MolNFT v1 · #148739 · protein

Anti-tumor antibody 14F7-derived single chain fragment variable (scfv)

6FFJ · 14F7-derived scfv: “Anti-tumor antibody 14F7-derived single chain fragment variable (scfv)”. X-ray diffraction, 14 pockets (best druggability 0.75). MolNFT v1 #148739 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6FFJ
Type: protein
Length: 917 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 14F7-derived scfv
Pockets: 14 · best druggability 0.75

Structure

x-ray diffraction · 4 distinct chains · 5% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	14F7-derived scfv	protein	232	5% helix, 50% strand	—
C	14F7-derived scfv	protein	233	5% helix, 49% strand	—
E	14F7-derived scfv	protein	226	5% helix, 51% strand	—
G	14F7-derived scfv	protein	226	5% helix, 50% strand	—

Pockets

14 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	1012	0.75	0.78	100	empty
2	172	0.54	0.79	25	empty
3	155	0.49	0.78	30	empty
4	125	0.40	0.74	23	empty
5	103	0.39	0.76	23	empty

Interfaces

3 interfaces between chains.

C–E · 547 Å² buried · 7 hydrogen bonds · protein-protein
A–C · 542 Å² buried · 7 hydrogen bonds · protein-protein
A–E · 420 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

6FFJ · Anti-tumor antibody 14F7-derived single chain fragment variable (scFv) · 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 6FFJ · PDBe 6FFJ

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