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Crystal structure of putative cytoplasmic protein, ycif bacterial stress response protein from salmonella enterica

Analyse Crystal structure of putative cytoplasmic protein, ycif bacterial stress… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4ERU
Type: protein
Length: 317 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ycif bacterial stress response protein
UniProt: D0ZIZ7
Ligands: MLT, MG
Pockets: 3 · best druggability 0.59

Structure

x-ray diffraction · 2 distinct chains · 81% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ycif bacterial stress response protein	protein	159	81% helix, 0% strand	D0ZIZ7
B	Ycif bacterial stress response protein	protein	158	81% helix, 0% strand	D0ZIZ7

Ligands and binding sites

MLT · D-malate · ligand · 2 copies · chains A, B
MG · Magnesium ion · metal · 4 copies · chains A, B

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

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	152	0.59	0.83	34	empty
2	71	0.54	0.87	22	empty
3	165	0.49	0.77	28	empty

Interfaces

1 interface between chains.

A–B · 1532 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 modified (engineered).

Compared structures

4ERU · Crystal Structure of Putative Cytoplasmic Protein, YciF Bacterial Stress Response Protein… · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt D0ZIZ7
Elsewhere: RCSB PDB 4ERU · PDBe 4ERU · UniProt D0ZIZ7

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