MolNFT v1 · #111304 · protein

Crystal structure of the substrate binding protein of an amino acid ABC transporter

4YMX · ABC-type amino acid transport system, periplasmic component: “Crystal structure of the substrate binding protein of an amino acid ABC transporter”. X-ray diffraction, 1 ligand (ARG), 3 pockets (best druggability 0.36). MolNFT v1…

PDB: 4YMX
Type: protein
Length: 448 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ABC-type amino acid transport system, periplasmic component
UniProt: Q8RCC4
Ligands: ARG
Pockets: 3 · best druggability 0.36

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	ABC-type amino acid transport system, periplasmic component	protein	224	38% helix, 29% strand	Q8RCC4

Ligands and binding sites

ARG · Arginine · ligand · 2 copies · chains A, B

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

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	128	0.36	0.72	16	empty
2	63	0.28	0.72	12	empty
3	56	0.27	0.73	11	empty

Interfaces

1 interface between chains.

A–B · 184 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

4YMX · Crystal structure of the substrate binding protein of an amino acid ABC transporter · 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 Q8RCC4
Elsewhere: RCSB PDB 4YMX · PDBe 4YMX · UniProt Q8RCC4

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