5E97	Hydrolase	date	Oct 14, 2015
title	Glycoside Hydrolase Ligand Structure 1
authors	L.Wu, G.J.Davies
compound		source
Molecule: Heparanase Chain: A Fragment: Residues 158-543 Synonym: Endo-Glucoronidase,Heparanase-1,Hpa1 Ec: 3.2.1.166 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hpse, Hep, Hpa, Hpa1, Hpr1, Hpse1, Hse1 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111
Molecule: Heparanase Chain: B Fragment: Residues 36-109 Synonym: Endo-Glucoronidase,Heparanase-1,Hpa1 Ec: 3.2.1.166 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hpse, Hep, Hpa, Hpa1, Hpr1, Hpse1, Hse1 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111
symmetry	Space Group: P 1 21 1	R_factor 0.166 R_Free 0.197
crystal cell	length a length b length c angle alpha angle beta angle gamma 45.880 70.890 78.230 90.00 94.91 90.00
method	X-Ray Diffraction	resolution	1.63 Å
ligand	BDP, CL, NAG, NDG, NPO	enzyme	Hydrolase E.C.3.2.1.166 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structural characterization of human heparanase reveals insights into substrate recognition., Wu L, Viola CM, Brzozowski AM, Davies GJ, Nat Struct Mol Biol. 2015 Nov 16. doi: 10.1038/nsmb.3136. PMID:26575439

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk] Biological Unit Coordinates (5e97.pdb1.gz) 84 Kb LPC: Ligand-Protein Contacts for 5E97 CSU: Contacts of Structural Units for 5E97 Structure Factors (4051 Kb) Retrieve 5E97 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5E97 from S2C, [Save to disk] Re-refined 5e97 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5E97 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 5E97

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5e97] [5e97_B] [5e97_A] SWISS-PROT database: Domain organization of by SWISSPFAM

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Community annotation for 5E97 at PDBWiki (http://pdbwiki.org)

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