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Structure of bamd from E. COLI

Analyse Structure of bamd from E. COLI in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2YHC
Type: protein
Length: 209 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: UPF0169 lipoprotein yfio
UniProt: P0AC02
Ligands: URE
Pockets: 3 · best druggability 0.39

Structure

x-ray diffraction · 1 distinct chain · 76% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	UPF0169 lipoprotein yfio	protein	209	76% helix, 0% strand	P0AC02

Ligands and binding sites

URE · Urea · ligand · chains A

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	58	0.39	0.80	12	empty
2	54	0.33	0.78	15	empty
3	58	0.27	0.73	13	empty

Compared structures

2YHC · Structure of BamD from E. coli · the same entry in another collection · chain A against A, TM-score 1.00
P0AC02 · AlphaFold monomer V2.0 prediction for outer membrane protein assembly factor bamd (P0AC02) · a predicted model of the same protein · chain A against A, TM-score 0.87

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 P0AC02
Elsewhere: RCSB PDB 2YHC · PDBe 2YHC · UniProt P0AC02

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