Research workbench

Sandercyanin fluorescent protein (sfp)

Analyse Sandercyanin fluorescent protein (sfp) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5EZ2
Type: protein
Length: 338 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sandercyanin fluorescent protein
Ligands: BLA
Pockets: 5 · best druggability 0.73

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 43% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Sandercyanin fluorescent protein	protein	169	14% helix, 43% strand	—

Ligands and binding sites

BLA · Biliverdine IX alpha · ligand · 2 copies · chains A, B
EDO · 1,2-ethanediol · additive · 5 copies · chains A, B

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

Pockets

5 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	422	0.73	0.83	51	BLA, EDO
2	348	0.71	0.83	42	BLA, EDO
3	156	0.48	0.77	27	empty
4	180	0.48	0.76	27	empty
5	62	0.39	0.80	18	empty

Interfaces

1 interface between chains.

A–B · 677 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

5EZ2 · Sandercyanin Fluorescent Protein (SFP) · 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 5EZ2 · PDBe 5EZ2

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