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Crystal structure of a trap periplasmic solute binding protein from desulfovibrio salexigens (DESAL_2161), target efi-510109, with bound orotic acid

Analyse Crystal structure of a trap periplasmic solute binding protein from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4NN3
Type: protein
Length: 311 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Trap dicarboxylate transporter, dctp subunit
UniProt: C6BW16
Ligands: ORO, CL
Pockets: 2 · best druggability 0.36

Structure

x-ray diffraction · 1 distinct chain · 54% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Trap dicarboxylate transporter, dctp subunit	protein	311	54% helix, 19% strand	C6BW16

Ligands and binding sites

ORO · Orotic acid · ligand · chains A
CL · Chloride ion · ion · chains A
PGE · Triethylene glycol · additive · chains A

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

Pockets

2 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	60	0.36	0.79	22	CL, PGE
2	62	0.28	0.73	15	empty

Compared structures

4NN3 · Crystal structure of a TRAP periplasmic solute binding protein from Desulfovibrio… · 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 C6BW16
Elsewhere: RCSB PDB 4NN3 · PDBe 4NN3 · UniProt C6BW16

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