MolNFT v1 · #181354 · protein

Crystal structure of the human neutralizing antibody Fab fragment T025 bound to tbev ediii (far eastern subtype)

7LSE · T025 Fab heavy chain: “Crystal structure of the human neutralizing antibody Fab fragment T025 bound to tbev ediii (far eastern…”. X-ray diffraction, 5 pockets (best druggability 0.58). MolNFT v1 #181354 on GenesisL1: 3D structure…

PDB: 7LSE
Type: protein
Length: 519 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: T025 Fab heavy chain; T025 Fab light chain; Envelope protein E
UniProt: P07720
Pockets: 5 · best druggability 0.58

Structure

x-ray diffraction · 3 distinct chains · 5% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
H	T025 Fab heavy chain	protein	213	7% helix, 50% strand	—
L	T025 Fab light chain	protein	213	6% helix, 51% strand	—
E	Envelope protein E	protein	93	0% helix, 56% strand	P07720

Ligands and binding sites

GOL · Glycerol · additive · chains H, L

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	418	0.58	0.75	56	empty
2	56	0.50	0.87	22	GOL
3	139	0.41	0.74	29	empty
4	64	0.35	0.78	18	empty
5	59	0.30	0.75	15	empty

Interfaces

3 interfaces between chains.

H–L · 1611 Å² buried · 14 hydrogen bonds · protein-protein
H–E · 383 Å² buried · 10 hydrogen bonds · protein-protein
L–E · 291 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 5 disulfide (disulfide).

Compared structures

7LSE · Crystal structure of the human neutralizing antibody Fab fragment T025 bound to TBEV… · the same entry in another collection · chain H against H, 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 P07720
Elsewhere: RCSB PDB 7LSE · PDBe 7LSE · UniProt P07720

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