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

Analyse Crystal structure of the substrate binding protein of an amino acid ABC… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

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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