MolNFT v1 · #125732 · protein

The catalytic domain of murine urokinase-type plasminogen activator in complex with the active site binding inhibitory nanobody NB22

5LHR: “The catalytic domain of murine urokinase-type plasminogen activator in complex with the active site binding…”. X-ray diffraction, 2 pockets (best druggability 0.50). MolNFT v1 #125732 on GenesisL1: 3D structure, binding sites and…

PDB: 5LHR
Type: protein
Length: 361 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Urokinase-type plasminogen activator; Camelid-derived antibody fragment NB22
EC: 3.4.21.73
UniProt: P06869
Pockets: 2 · best druggability 0.50

Structure

x-ray diffraction · 2 distinct chains · 8% helix, 43% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Urokinase-type plasminogen activator (EC 3.4.21.73)	protein	245	10% helix, 40% strand	P06869
B	Camelid-derived antibody fragment NB22	protein	116	5% helix, 48% strand	—

Pockets

2 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	227	0.50	0.75	46	empty
2	56	0.38	0.80	18	empty

Interfaces

1 interface between chains.

A–B · 915 Å² buried · 28 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

5LHR · The catalytic domain of murine urokinase-type plasminogen activator in complex with the… · the same entry in another collection · chain A against A, TM-score 1.00
P06869 · AlphaFold monomer V2.0 prediction for urokinase-type plasminogen activator (P06869) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 P06869
Elsewhere: RCSB PDB 5LHR · PDBe 5LHR · UniProt P06869

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