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Sandercyanin mutant-F55A-biliverdin complex

Analyse Sandercyanin mutant-F55A-biliverdin complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7VNL
Type: protein
Length: 338 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sandercyanin fluorescent protein
UniProt: A0A1D5B367
Ligands: BLA
Pockets: 4 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 14% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Sandercyanin fluorescent protein	protein	169	14% helix, 44% strand	A0A1D5B367

Ligands and binding sites

BLA · Biliverdine IX alpha · ligand · 2 copies · chains A, B
PG4 · Tetraethylene glycol · additive · 2 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, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	320	0.78	0.89	33	BLA
2	327	0.78	0.88	34	BLA
3	134	0.43	0.76	24	empty
4	131	0.43	0.76	25	empty

Interfaces

1 interface between chains.

A–B · 666 Å² buried · 4 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

7VNL · Sandercyanin mutant-F55A-Biliverdin complex · 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 A0A1D5B367
Elsewhere: RCSB PDB 7VNL · PDBe 7VNL · UniProt A0A1D5B367

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