1JPL Signaling Protein date Aug 02, 2001
title Gga3 Vhs Domain Complexed With C-Terminal Peptide From Cation-Independent Mannose 6-Phosphate Receptor
authors S.Misra, R.Puertollano, J.S.Bonifacino, J.H.Hurley
compound source
Molecule: Adp-Ribosylation Factor Binding Protein Gga3
Chain: A, B, C, D
Fragment: Vhs Domain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gga3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phis-Parallel2

Molecule: Cation-Independent Mannose 6-Phosphate Receptor
Chain: E, F, G, H
Fragment: C-Terminal Peptide
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized.
symmetry Space Group: P 21 21 2
R_factor 0.213 R_Free 0.257
length a length b length c angle alpha angle beta angle gamma
108.300 125.300 64.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand MSE enzyme
related structures by homologous chain: 1LF8, 1PY1
A, D, C, B

Primary referenceStructural basis for acidic-cluster-dileucine sorting-signal recognition by VHS domains., Misra S, Puertollano R, Kato Y, Bonifacino JS, Hurley JH, Nature 2002 Feb 21;415(6874):933-7. PMID:11859375
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (1jpl.pdb1.gz) 30 Kb
  • Biological Unit Coordinates (1jpl.pdb2.gz) 30 Kb
  • Biological Unit Coordinates (1jpl.pdb3.gz) 30 Kb
  • Biological Unit Coordinates (1jpl.pdb4.gz) 30 Kb
  • Biological Unit Coordinates (1jpl.pdb5.gz) 114 Kb
  • Biological Unit Coordinates (1jpl.pdb6.gz) 114 Kb
  • Biological Unit Coordinates (1jpl.pdb7.gz) 114 Kb
  • Biological Unit Coordinates (1jpl.pdb8.gz) 114 Kb
  • Biological Unit Coordinates (1jpl.pdb9.gz) 58 Kb
  • LPC: Ligand-Protein Contacts for 1JPL
  • CSU: Contacts of Structural Units for 1JPL
  • Likely Quarternary Molecular Structure file(s) for 1JPL
  • Structure Factors (554 Kb)
  • Retrieve 1JPL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JPL from S2C, [Save to disk]
  • Re-refined 1jpl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1JPL 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 1JPL
  • 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 1JPL, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jpla_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1jplb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1jplc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1jpld_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1jpl 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: [1jpl_A] [1jpl_E] [1jpl_C] [1jpl] [1jpl_F] [1jpl_G] [1jpl_H] [1jpl_B] [1jpl_D]
  • SWISS-PROT database: [Q9NZ52]
  • Domain organization of [GGA3_HUMAN] by SWISSPFAM
  • Domain found in 1JPL: [VHS ] by SMART
  • Other resources with information on 1JPL
  • Community annotation for 1JPL 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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