1P4U Protein Transport date Apr 24, 2003
title Crystal Structure Of Gga3 Gae Domain In Complex With Rabaptin-5 Peptide
authors G.J.Miller, R.Mattera, J.S.Bonifacino, J.H.Hurley
compound source
Molecule: Adp-Ribosylation Factor Binding Protein Gga3
Chain: A
Synonym: Golgi-Localized, Gamma Ear-Containing, Arf- Binding Protein 3;
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: Pgst-Parallel2

Molecule: Rabaptin-5
Chain: B
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized.
symmetry Space Group: C 2 2 21
R_factor 0.217 R_Free 0.255
length a length b length c angle alpha angle beta angle gamma
45.200 85.200 97.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
related structures by homologous chain: 1NA8

Primary referenceRecognition of accessory protein motifs by the gamma-adaptin ear domain of GGA3., Miller GJ, Mattera R, Bonifacino JS, Hurley JH, Nat Struct Biol 2003 Aug;10(8):599-606. PMID:12858162
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (1p4u.pdb1.gz) 28 Kb
  • Biological Unit Coordinates (1p4u.pdb2.gz) 55 Kb
  • CSU: Contacts of Structural Units for 1P4U
  • Likely Quarternary Molecular Structure file(s) for 1P4U
  • Structure Factors (156 Kb)
  • Retrieve 1P4U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P4U from S2C, [Save to disk]
  • Re-refined 1p4u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1P4U 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 1P4U
  • 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 1P4U, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p4ua_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1p4u 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: [1p4u_A] [1p4u] [1p4u_B]
  • SWISS-PROT database: [Q9NZ52]
  • Domain organization of [GGA3_HUMAN] by SWISSPFAM
  • Domain found in 1P4U: [Alpha_adaptinC2 ] by SMART
  • Other resources with information on 1P4U
  • Community annotation for 1P4U 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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