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Crystal structure of D-lactate dehydrogenase (D-ldh) from lactobacillus jensenii

Analyse Crystal structure of D-lactate dehydrogenase (D-ldh) from lactobacillus jensenii in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4PRK
Type: protein
Length: 658 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 4-phosphoerythronate dehydrogenase
EC: 1.1.1.290
UniProt: C5G4U0
Pockets: 5 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 43% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	4-phosphoerythronate dehydrogenase (EC 1.1.1.290)	protein	329	43% helix, 17% strand	C5G4U0

Pockets

5 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	722	0.69	0.76	57	empty
2	649	0.65	0.75	57	empty
3	197	0.60	0.82	33	empty
4	135	0.41	0.75	24	empty
5	100	0.39	0.77	22	empty

Interfaces

1 interface between chains.

A–B · 2663 Å² buried · 41 hydrogen bonds · protein-protein

Compared structures

4PRK · Crystal structure of D-lactate dehydrogenase (D-LDH) from Lactobacillus jensenii · 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 C5G4U0
Elsewhere: RCSB PDB 4PRK · PDBe 4PRK · UniProt C5G4U0

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