1OM9 Protein Transport, Signaling Protein date Feb 25, 2003
title Structure Of The Gga1-Appendage In Complex With The P56 Binding Peptide
authors B.M.Collins, G.J.K.Praefcke, M.S.Robinson, D.J.Owen
compound source
Molecule: Adp-Ribosylation Factor Binding Protein Gga1
Chain: A, B
Fragment: Appendage Domain, Residues 494-639 Of Sws Q9ujy5
Synonym: Gga1-Appendage Domain; Adp-Ribosylation Factor Binding Protein 1; Gamma-Adaptin Related Protein 1; Golgi- Localized, Gamma Ear-Containing, Arf-Binding Protein 1; Gga1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gga1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Iptg Inducible T7 Rna Polymerase Promoter;
Expression_system_plasmid: Pmwh6172

Molecule: 15-Mer Peptide Fragment Of P56
Chain: P, Q
Engineered: Yes

Synthetic: Yes
Other_details: Sequence Occurs Naturally In Homo Sapiens
symmetry Space Group: P 31 2 1
R_factor 0.213 R_Free 0.262
length a length b length c angle alpha angle beta angle gamma
61.414 61.414 145.008 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1NA8
A, B

Primary referenceStructural basis for binding of accessory proteins by the appendage domain of GGAs., Collins BM, Praefcke GJ, Robinson MS, Owen DJ, Nat Struct Biol 2003 Aug;10(8):607-13. PMID:12858163
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (1om9.pdb1.gz) 25 Kb
  • Biological Unit Coordinates (1om9.pdb2.gz) 25 Kb
  • Biological Unit Coordinates (1om9.pdb3.gz) 49 Kb
  • CSU: Contacts of Structural Units for 1OM9
  • Likely Quarternary Molecular Structure file(s) for 1OM9
  • Structure Factors (204 Kb)
  • Retrieve 1OM9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OM9 from S2C, [Save to disk]
  • Re-refined 1om9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OM9 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 1OM9
  • 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 1OM9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1om9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1om9b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1om9 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: [1om9_Q] [1om9] [1om9_P] [1om9_A] [1om9_B]
  • SWISS-PROT database: [Q7Z6B0] [Q9UJY5]
  • Domain organization of [CCD91_HUMAN] [GGA1_HUMAN] by SWISSPFAM
  • Domain found in 1OM9: [Alpha_adaptinC2 ] by SMART
  • Other resources with information on 1OM9
  • Community annotation for 1OM9 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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