MolNFT v1 · #110861 · protein

Crystal structure of ligd in complex with NADH from sphingobium sp. strain syk-6

4Y9D · C alpha-dehydrogenase: “Crystal structure of ligd in complex with NADH from sphingobium sp. strain syk-6”. X-ray diffraction, 1 ligand (NAI), 1 pocket (best druggability 0.51). MolNFT v1 #110861 on GenesisL1: 3D structure, binding…

PDB: 4Y9D
Type: protein
Length: 235 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: C alpha-dehydrogenase
UniProt: G2IN91
Ligands: NAI
Pockets: 1 · best druggability 0.51

Structure

x-ray diffraction · 1 distinct chain · 55% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	C alpha-dehydrogenase	protein	235	55% helix, 14% strand	G2IN91

Ligands and binding sites

NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	199	0.51	0.76	35	NAI

Compared structures

4Y9D · Crystal structure of LigD in complex with NADH from Sphingobium sp. strain SYK-6 · 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 G2IN91
Elsewhere: RCSB PDB 4Y9D · PDBe 4Y9D · UniProt G2IN91

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