MolNFT v1 · #36559 · protein

Crystal structure of ydck from salmonella cholerae. nesg target SCR6

2F9C · Hypothetical protein ydck: “Crystal structure of ydck from salmonella cholerae. nesg target SCR6”. X-ray diffraction, 1 ligand (CS), 4 pockets (best druggability 0.65). MolNFT v1 #36559 on GenesisL1: 3D structure, binding sites and…

PDB: 2F9C
Type: protein
Length: 639 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Hypothetical protein ydck
Ligands: CS
Pockets: 4 · best druggability 0.65

Structure

x-ray diffraction · 2 distinct chains · 0% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Hypothetical protein ydck	protein	320	0% helix, 40% strand	—
B	Hypothetical protein ydck	protein	319	1% helix, 41% strand	—

Ligands and binding sites

CS · Cesium ion · metal · 6 copies · chains A, B

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	359	0.65	0.80	49	empty
2	53	0.38	0.81	14	empty
3	57	0.28	0.74	15	empty
4	56	0.27	0.74	14	empty

Interfaces

1 interface between chains.

A–B · 1997 Å² buried · 30 hydrogen bonds · protein-protein

Compared structures

2F9C · Crystal structure of YDCK from Salmonella cholerae. NESG target SCR6 · 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
Elsewhere: RCSB PDB 2F9C · PDBe 2F9C

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