1F0J Hydrolase date May 16, 2000
title Catalytic Domain Of Human Phosphodiesterase 4b2b
authors R.X.Xu, A.M.Hassell, D.Vanderwall, M.H.Lambert, W.D.Holmes, M.A.Luther, W.J.Rocque, M.V.Milburn, Y.Zhao, H.Ke, R.T.Nolte
compound source
Molecule: Phosphodiesterase 4b
Chain: A, B
Fragment: Catalytic Domain
Synonym: Pde4b
Ec: 3.1.4.17
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cell_line: Monocyte
Expression_system: Unidentified Baculovirus
Expression_system_taxid: 10469
Expression_system_cell_line: Trichoplusia Ni
symmetry Space Group: C 2 2 21
R_factor 0.204 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.540 159.580 109.040 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.77 Å
ligand ARS, MG, ZN enzyme Hydrolase E.C.3.1.4.17 BRENDA
related structures by homologous chain: 1XON, 1XOQ
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceAtomic structure of PDE4: insights into phosphodiesterase mechanism and specificity., Xu RX, Hassell AM, Vanderwall D, Lambert MH, Holmes WD, Luther MA, Rocque WJ, Milburn MV, Zhao Y, Ke H, Nolte RT, Science 2000 Jun 9;288(5472):1822-5. PMID:10846163
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (1f0j.pdb1.gz) 67 Kb
  • Biological Unit Coordinates (1f0j.pdb2.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 1F0J
  • CSU: Contacts of Structural Units for 1F0J
  • Likely Quarternary Molecular Structure file(s) for 1F0J
  • Retrieve 1F0J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F0J from S2C, [Save to disk]
  • View 1F0J 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 1F0J
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1F0J, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f0ja_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1f0jb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1f0j from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1f0j_A] [1f0j] [1f0j_B]
  • SWISS-PROT database: [Q07343]
  • Domain organization of [PDE4B_HUMAN] by SWISSPFAM
  • Domain found in 1F0J: [HDc ] by SMART
  • Other resources with information on 1F0J
  • Community annotation for 1F0J at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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