2PJF Hydrolase date Apr 16, 2007
title Solution Structure Of Rhodostomin
authors W.J.Chuang, Y.C.Chen, C.Y.Chen, Y.T.Chang
compound source
Molecule: Rhodostoxin-Disintegrin Rhodostomin
Chain: A
Fragment: Residues 1-68
Ec: 3.4.24.-
Engineered: Yes
 Organism_scientific: Calloselasma Rhodostoma
Organism_common: Malayan Pit Viper
Organism_taxid: 8717
Gene: Rhod
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: X33
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppiczaa
methodSolution NMR
ligand
enzyme Hydrolase E.C.3.4.24 BRENDA
note 2PJF supersedes 1JYP
Primary referenceEffect of D to E mutation of the RGD motif in rhodostomin on its activity, structure, and dynamics: Importance of the interactions between the D residue and integrin., Chen CY, Shiu JH, Hsieh YH, Liu YC, Chen YC, Chen YC, Jeng WY, Tang MJ, Lo SJ, Chuang WJ, Proteins. 2009 Feb 2. PMID:19280603
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (321 Kb) [Save to disk]
  • Biological Unit Coordinates (2pjf.pdb1.gz) 16 Kb
  • CSU: Contacts of Structural Units for 2PJF
  • Original NMR restraints for 2PJF from PDB
  • Retrieve 2PJF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PJF from S2C, [Save to disk]
    • View 2PJF 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 2PJF
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2PJF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pjf_A] [2pjf]
  • SWISS-PROT database: [P30403]
  • Domain organization of [DISR_AGKRH] by SWISSPFAM
  • Domain found in 2PJF: [DISIN ] by SMART
    • Other resources with information on 2PJF
  • Community annotation for 2PJF 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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