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Structure and ligand determinants of the recombinant kringle 5 domain of human plasminogen

Analyse Structure and ligand determinants of the recombinant kringle 5 domain of human… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5HPG
Type: protein
Length: 168 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Plasminogen
EC: 3.4.21.7
UniProt: P00747
Pockets: 1 · best druggability 0.72

Structure

x-ray diffraction · 1 distinct chain · 0% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Plasminogen (EC 3.4.21.7)	protein	84	0% helix, 15% strand	P00747

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	76	0.72	0.96	24	empty

Interfaces

1 interface between chains.

A–B · 674 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

5HPG · Structure and ligand determinants of the recombinant kringle 5 domain of human plasminogen · the same entry in another collection · chain A against A, TM-score 1.00
P00747 · AlphaFold monomer V2.0 prediction for plasminogen (P00747) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 P00747
Elsewhere: RCSB PDB 5HPG · PDBe 5HPG · UniProt P00747

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