MolNFT v1 · #108625 · protein

Crystal structure of product bound cell shape determinant protein CSD4 from helicobacter pylori

4WCL · Conserved hypothetical secreted protein: “Crystal structure of product bound cell shape determinant protein CSD4 from helicobacter pylori”. X-ray diffraction, 4 ligands (API, ZN, NA), 4 pockets (best druggability 0.53). MolNFT v1…

PDB: 4WCL
Type: protein
Length: 416 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Conserved hypothetical secreted protein
UniProt: B5ZAD9
Ligands: API, ZN, NA, IOD
Pockets: 4 · best druggability 0.53

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	416	25% helix, 33% strand	B5ZAD9

Ligands and binding sites

API · 2,6-diaminopimelic acid · ligand · chains A
ZN · Zinc ion · metal · 3 copies · chains A
NA · Sodium ion · metal · chains A
IOD · Iodide ion · ion · 31 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	106	0.53	0.83	25	API
2	91	0.36	0.74	17	IOD
3	67	0.33	0.76	16	empty
4	71	0.32	0.75	16	IOD

Compared structures

4WCL · Crystal Structure of product bound Cell Shape Determinant protein Csd4 from Helicobacter… · 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 4WCL · PDBe 4WCL · UniProt B5ZAD9

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