MolNFT v1 · #56253 · protein

Ethanolamine utilization protein, eutn

2Z9H · Ethanolamine utilization protein eutn: “Ethanolamine utilization protein, eutn”. X-ray diffraction, 1 ligand (CL), 5 pockets (best druggability 0.40). MolNFT v1 #56253 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2Z9H
Type: protein
Length: 551 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ethanolamine utilization protein eutn
UniProt: P0AEJ8
Ligands: CL
Pockets: 5 · best druggability 0.40

Structure

x-ray diffraction · 4 distinct chains · 7% helix, 54% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Ethanolamine utilization protein eutn	protein	96	11% helix, 50% strand	P0AEJ8
B, E	Ethanolamine utilization protein eutn	protein	97	10% helix, 51% strand	P0AEJ8
C	Ethanolamine utilization protein eutn	protein	83	0% helix, 58% strand	P0AEJ8
F	Ethanolamine utilization protein eutn	protein	82	4% helix, 59% strand	P0AEJ8

Ligands and binding sites

CL · Chloride ion · ion · chains C, D
MRD · (4R)-2-methylpentane-2,4-diol · additive · 4 copies · chains A, B, F, E

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

Pockets

5 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	141	0.40	0.73	27	empty
2	67	0.39	0.79	14	empty
3	111	0.37	0.74	25	CL
4	89	0.34	0.74	22	empty
5	58	0.30	0.75	13	empty

Interfaces

6 interfaces between chains.

D–E · 1060 Å² buried · 24 hydrogen bonds · protein-protein
A–B · 1006 Å² buried · 20 hydrogen bonds · protein-protein
C–D · 878 Å² buried · 12 hydrogen bonds · protein-protein
A–F · 869 Å² buried · 13 hydrogen bonds · protein-protein
B–C · 849 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

2Z9H · Ethanolamine utilization protein, EutN · the same entry in another collection · chain F against F, TM-score 1.00
P0AEJ8 · AlphaFold monomer V2.0 prediction for ethanolamine catabolic microcompartment shell… · a predicted model of the same protein · chain B against A, TM-score 0.93

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 P0AEJ8
Elsewhere: RCSB PDB 2Z9H · PDBe 2Z9H · UniProt P0AEJ8

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