1YWH	Hydrolase Receptor	date	Feb 18, 2005
title	Crystal Structure Of Urokinase Plasminogen Activator Recepto
authors	P.Llinas, M.H.Le Du, H.Gardsvoll, K.Dano, M.Ploug, B.Gilquin, E.A. A.Menez
compound		source
Molecule: Urokinase Plasminogen Activator Surface Receptor Chain: A, C, E, G, I, K, M, O Synonym: Upar, U- Par, Monocyte Activation Antigen Mo3, Cd8 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plaur, Mo3, Upar Expression_system: Drosophila Melanogaster Expression_system_common: Fruit Fly Expression_system_taxid: 7227 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmtc-Supar
Molecule: Antagonist Peptide Chain: B, D, F, H, J, L, N, P Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 1 21 1	R_factor 0.245 R_Free 0.315
crystal cell	length a length b length c angle alpha angle beta angle gamma 106.928 136.831 140.536 90.00 97.27 90.00
method	X-Ray Diffraction	resolution	2.70 Å
ligand	ALC, BMA, DLY, DSN, FUC, MAN, NAG, SO4	enzyme
Gene Ontology	Chain Function Process Component A, O, M, C, K, I, G, E
Primary reference	Crystal structure of the human urokinase plasminogen activator receptor bound to an antagonist peptide., Llinas P, Helene Le Du M, Gardsvoll H, Dano K, Ploug M, Gilquin B, Stura EA, Menez A, EMBO J 2005 Apr 7;. PMID:15861141

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (381 Kb) [Save to disk] Biological Unit Coordinates (1ywh.pdb1.gz) 364 Kb Biological Unit Coordinates (1ywh.pdb2.gz) 185 Kb Biological Unit Coordinates (1ywh.pdb3.gz) 186 Kb LPC: Ligand-Protein Contacts for 1YWH CSU: Contacts of Structural Units for 1YWH Likely Quarternary Molecular Structure file(s) for 1YWH Structure Factors (768 Kb) Retrieve 1YWH in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YWH from S2C, [Save to disk] Re-refined 1ywh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YWH in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1YWH

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1YWH, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1ywh_D] [1ywh_H] [1ywh_I] [1ywh_L] [1ywh] [1ywh_O] [1ywh_E] [1ywh_M] [1ywh_F] [1ywh_B] [1ywh_A] [1ywh_K] [1ywh_J] [1ywh_C] [1ywh_P] [1ywh_G] [1ywh_N] SWISS-PROT database: [Q03405] Domain organization of [UPAR_HUMAN] by SWISSPFAM Domain found in 1YWH: [LU ] by SMART

Other resources with information on 1YWH

Community annotation for 1YWH at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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