1Y3A Signaling Protein date Nov 24, 2004
title Structure Of G-Alpha-I1 Bound To A Gdp-Selective Peptide Pro Insight Into Guanine Nucleotide Exchange
authors C.A.Johnston, F.S.Willard, M.R.Jezyk, Z.Fredericks, E.T.Bodor, M. R.Blaesius, T.K.Harden, J.Sondek, V.J.Watts, J.K.Ramer, D.P.Side
compound source
Molecule: Guanine Nucleotide-Binding Protein G(I), Alpha-1
Chain: A, B, C, D
Fragment: Sequence Database Residues 25-353
Synonym: Adenylate Cyclase-Inhibiting G Alpha Protein, G-Al
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gnai1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppro-Exhtb

Molecule: Kb752 Peptide
Chain: E, F, G, H
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppro-Exhtb
Other_details: Protein Selected By Phage Display
symmetry Space Group: P 1 21 1
R_factor 0.240 R_Free 0.280
length a length b length c angle alpha angle beta angle gamma
72.943 112.785 109.490 90.00 93.75 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand GDP enzyme
A, D, C, B

Primary referenceStructure of Galpha(i1) Bound to a GDP-Selective Peptide Provides Insight into Guanine Nucleotide Exchange., Johnston CA, Willard FS, Jezyk MR, Fredericks Z, Bodor ET, Jones MB, Blaesius R, Watts VJ, Harden TK, Sondek J, Ramer JK, Siderovski DP, Structure (Camb) 2005 Jul;13(7):1069-80. PMID:16004878
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (217 Kb) [Save to disk]
  • Biological Unit Coordinates (1y3a.pdb1.gz) 55 Kb
  • Biological Unit Coordinates (1y3a.pdb2.gz) 56 Kb
  • Biological Unit Coordinates (1y3a.pdb3.gz) 55 Kb
  • Biological Unit Coordinates (1y3a.pdb4.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 1Y3A
  • CSU: Contacts of Structural Units for 1Y3A
  • Likely Quarternary Molecular Structure file(s) for 1Y3A
  • Structure Factors (764 Kb)
  • Retrieve 1Y3A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y3A from S2C, [Save to disk]
  • Re-refined 1y3a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y3A 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 1Y3A
  • 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 1Y3A, from MSDmotif at EBI
  • Fold representative 1y3a from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y3a_A] [1y3a_B] [1y3a_F] [1y3a_E] [1y3a_D] [1y3a_G] [1y3a] [1y3a_C] [1y3a_H]
  • SWISS-PROT database: [P63096]
  • Domain organization of [GNAI1_HUMAN] by SWISSPFAM
  • Domain found in 1Y3A: [G_alpha ] by SMART
  • Other resources with information on 1Y3A
  • Community annotation for 1Y3A 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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