2H42	Hydrolase	date	May 23, 2006
title	Crystal Structure Of Pde5 In Complex With Sildenafil
authors	H.Wang, H.Ke
compound		source
Molecule: Cgmp-Specific 3',5'-Cyclic Phosphodiesterase Chain: A, B, C Fragment: Catalytic Domain, Residues 535-860 Synonym: Cgb-Pde, Cgmp-Binding Cgmp-Specific Phosphodiester Ec: 3.1.4.35 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pde5a, Pde5 Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
symmetry	Space Group: P 62 2 2	R_factor 0.210 R_Free 0.246
crystal cell	length a length b length c angle alpha angle beta angle gamma 164.575 164.575 193.127 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	MG, VIA, ZN BindingDB	enzyme	Hydrolase E.C.3.1.4.35 BRENDA
Gene Ontology	Chain Function Process Component A, C, B
Primary reference	Multiple Conformations of Phosphodiesterase-5: IMPLICATIONS FOR ENZYME FUNCTION AND DRUG DEVELOPMENT., Wang H, Liu Y, Huai Q, Cai J, Zoraghi R, Francis SH, Corbin JD, Robinson H, Xin Z, Lin G, Ke H, J Biol Chem. 2006 Jul 28;281(30):21469-79. Epub 2006 May 30. PMID:16735511

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk] Biological Unit Coordinates (2h42.pdb1.gz) 57 Kb Biological Unit Coordinates (2h42.pdb2.gz) 56 Kb Biological Unit Coordinates (2h42.pdb3.gz) 56 Kb Biological Unit Coordinates (2h42.pdb4.gz) 109 Kb LPC: Ligand-Protein Contacts for 2H42 CSU: Contacts of Structural Units for 2H42 Likely Quarternary Molecular Structure file(s) for 2H42 Structure Factors (817 Kb) Retrieve 2H42 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2H42 from S2C, [Save to disk] Re-refined 2h42 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2H42 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 2H42

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 2H42, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2h42_B] [2h42] [2h42_C] [2h42_A] SWISS-PROT database: [O76074] Domain organization of [PDE5A_HUMAN] by SWISSPFAM Domain found in 2H42: [HDc ] by SMART

Other resources with information on 2H42

Community annotation for 2H42 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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