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Structure of biliverdin-binding serpin of boana punctata (polka-dot tree frog)

Analyse Structure of biliverdin-binding serpin of boana punctata (polka-dot tree frog) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7RBW
Type: protein
Length: 760 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Biliverdin bindin serpin
UniProt: A0A7D7FB99
Ligands: BLA
Pockets: 9 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 30% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Biliverdin bindin serpin	protein	381	30% helix, 31% strand	A0A7D7FB99
B	Biliverdin bindin serpin	protein	379	30% helix, 31% strand	A0A7D7FB99

Ligands and binding sites

BLA · Biliverdine IX alpha · ligand · 2 copies · chains A, B

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

Pockets

9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	356	0.79	0.89	43	BLA
2	485	0.78	0.86	56	BLA
3	81	0.60	0.89	23	empty
4	105	0.57	0.85	26	empty
5	146	0.45	0.76	27	empty

Compared structures

7RBW · Structure of Biliverdin-binding Serpin of Boana punctata (polka-dot tree frog) · 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 A0A7D7FB99
Elsewhere: RCSB PDB 7RBW · PDBe 7RBW · UniProt A0A7D7FB99

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