1XOT	Hydrolase	date	Oct 06, 2004
title	Catalytic Domain Of Human Phosphodiesterase 4b In Complex Wi Vardenafil
authors	G.L.Card, B.P.England, Y.Suzuki, D.Fong, B.Powell, B.Lee, C.Luu, M.Tabrizizad, S.Gillette, P.N.Ibrahim, D.R.Artis, G.Bollag, M.V. S.H.Kim, J.Schlessinger, K.Y.J.Zhang
compound		source
Molecule: Camp-Specific 3',5'-Cyclic Phosphodiesterase 4b Chain: B, A Fragment: Catalytic Domain Of Human Phosphodiesterase 4b Synonym: Dpde4, Pde32 Ec: 3.1.4.17 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pde4b Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Codon Plus(Ril) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
symmetry	Space Group: P 21 21 21	R_factor 0.210 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 89.841 94.423 108.755 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.34 Å
ligand	CME, MG, VDN, ZN BindingDB	enzyme	Hydrolase E.C.3.1.4.17 BRENDA
related structures	by homologous chain: 1XM4, 1XMY
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural basis for the activity of drugs that inhibit phosphodiesterases., Card GL, England BP, Suzuki Y, Fong D, Powell B, Lee B, Luu C, Tabrizizad M, Gillette S, Ibrahim PN, Artis DR, Bollag G, Milburn MV, Kim SH, Schlessinger J, Zhang KY, Structure (Camb) 2004 Dec;12(12):2233-47. PMID:15576036

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk] Biological Unit Coordinates (1xot.pdb1.gz) 56 Kb Biological Unit Coordinates (1xot.pdb2.gz) 56 Kb LPC: Ligand-Protein Contacts for 1XOT CSU: Contacts of Structural Units for 1XOT Likely Quarternary Molecular Structure file(s) for 1XOT Structure Factors (308 Kb) Retrieve 1XOT in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1XOT from S2C, [Save to disk] Re-refined 1xot structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1XOT 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 1XOT

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 1XOT, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1xota_, region A [Jmol] [rasmolscript] [script source]     - Domain d1xotb_, region B [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1xot_A] [1xot_B] [1xot] SWISS-PROT database: [Q07343] Domain organization of [PDE4B_HUMAN] by SWISSPFAM Domain found in 1XOT: [HDc ] by SMART

Other resources with information on 1XOT

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

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