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Crystal structure of substrate-binding protein aapf from pseudomonas sp. PDC86

Analyse Crystal structure of substrate-binding protein aapf from pseudomonas sp. PDC86 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7KZ8
Type: protein
Length: 477 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: PEPTIDE/NICKEL transport system substrate-binding protein aapf
UniProt: A0A1H3V8R8
Pockets: 4 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 35% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	PEPTIDE/NICKEL transport system substrate-binding protein aapf	protein	477	35% helix, 23% strand	A0A1H3V8R8

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A

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	80	0.76	0.98	26	GOL
2	126	0.64	0.88	32	empty
3	62	0.28	0.73	21	empty
4	55	0.28	0.74	18	empty

Compared structures

7KZ8 · Crystal structure of substrate-binding protein Aapf from Pseudomonas sp. PDC86 · 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 A0A1H3V8R8
Elsewhere: RCSB PDB 7KZ8 · PDBe 7KZ8 · UniProt A0A1H3V8R8

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