1P4V Hydrolase date Apr 24, 2003
title Crystal Structure Of The Glycosylasparaginase Precursor D151 With Glycine
authors X.Qian, C.Guan, H.C.Guo
compound source
Molecule: N(4)-(Beta-N-Acetylglucosaminyl)-L-Asparaginase P
Chain: A, C
Fragment: Glycosylasparaginase, Alpha And Beta Chains
Synonym: Glycosylasparaginase, Aspartylglucosaminidase, N4- Beta-Glucosaminyl, -L-Asparagine Amidase, Aga;
Engineered: Yes
Mutation: Yes
Organism_scientific: Elizabethkingia Meningoseptica
Organism_taxid: 238
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal-C2x
symmetry Space Group: P 1
R_factor 0.193 R_Free 0.225
length a length b length c angle alpha angle beta angle gamma
45.877 52.369 61.741 80.92 90.41 105.10
method X-Ray Diffractionresolution 1.90 Å
ligand GLY enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1P4K, 9GAF
A, C

Primary referenceA dual role for an aspartic acid in glycosylasparaginase autoproteolysis., Qian X, Guan C, Guo HC, Structure (Camb) 2003 Aug;11(8):997-1003. PMID:12906830
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (1p4v.pdb1.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 1P4V
  • CSU: Contacts of Structural Units for 1P4V
  • Likely Quarternary Molecular Structure file(s) for 1P4V
  • Structure Factors (497 Kb)
  • Retrieve 1P4V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P4V from S2C, [Save to disk]
  • Re-refined 1p4v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1P4V 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 1P4V
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1P4V, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p4va_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1p4vc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1p4v from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1p4v_A] [1p4v_C] [1p4v]
  • SWISS-PROT database: [Q47898]
  • Domain organization of [ASPG_ELIMR] by SWISSPFAM
  • Other resources with information on 1P4V
  • Community annotation for 1P4V 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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