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Crystal structure of GENB4 in complex with plp

Analyse Crystal structure of GENB4 in complex with plp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7LLE
Type: protein
Length: 891 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: C-6' aminotransferase
UniProt: Q6QVT7
Ligands: PLP
Pockets: 7 · best druggability 0.83

Structure

x-ray diffraction · 2 distinct chains · 46% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	C-6' aminotransferase	protein	446	46% helix, 14% strand	Q6QVT7
B	C-6' aminotransferase	protein	445	47% helix, 14% strand	Q6QVT7

Ligands and binding sites

PLP · Pyridoxal-5'-phosphate · ligand · 2 copies · chains A, B

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

Pockets

7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	176	0.83	0.97	27	empty
2	760	0.75	0.80	69	PLP
3	675	0.75	0.81	71	PLP
4	110	0.42	0.76	17	empty
5	90	0.40	0.77	17	empty

Interfaces

1 interface between chains.

A–B · 4519 Å² buried · 85 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 cofactor (pyridoxal phosphate Schiff base).

Compared structures

7LLE · Crystal structure of GenB4 in complex with PLP · 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 Q6QVT7
Elsewhere: RCSB PDB 7LLE · PDBe 7LLE · UniProt Q6QVT7

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