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Crystal structure of apo cell shape determinant protein CSD4 from helicobacter pylori

Analyse Crystal structure of apo cell shape determinant protein CSD4 from helicobacter… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4WCK
Type: protein
Length: 420 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Conserved hypothetical secreted protein
UniProt: B5ZAD9
Ligands: API, IOD
Pockets: 4 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Conserved hypothetical secreted protein	protein	420	25% helix, 33% strand	B5ZAD9

Ligands and binding sites

API · 2,6-diaminopimelic acid · ligand · chains A
IOD · Iodide ion · ion · 32 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	134	0.55	0.82	28	IOD, API
2	179	0.47	0.76	32	IOD
3	149	0.46	0.76	26	IOD
4	67	0.33	0.75	16	empty

Compared structures

4WCK · Crystal Structure of apo Cell Shape Determinant protein Csd4 from Helicobacter pylori · 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 B5ZAD9
Elsewhere: RCSB PDB 4WCK · PDBe 4WCK · UniProt B5ZAD9

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