1O87 Protein Transport date Nov 25, 2002
title A New Mggdp Complex Of The Ffh Ng Domain
authors D.M.Freymann
compound source
Molecule: Signal Recognition Particle Protein
Chain: A, B
Fragment: Ng Gtpase Domain, Residues 1-296
Synonym: Fifty-Four Homolog, Ffh
Engineered: Yes
 Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.195 R_Free 0.237
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.415 113.631 61.382 90.00 111.76 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CL, FMT, GDP, MG enzyme
related structures by homologous chain: 1FFH, 3NG1
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceNovel protein and Mg2+ configurations in the Mg2+GDP complex of the SRP GTPase ffh., Focia PJ, Alam H, Lu T, Ramirez UD, Freymann DM, Proteins 2004 Feb 1;54(2):222-30. PMID:14696184
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk]
  • Biological Unit Coordinates (1o87.pdb1.gz) 51 Kb
  • Biological Unit Coordinates (1o87.pdb2.gz) 51 Kb
  • LPC: Ligand-Protein Contacts for 1O87
  • CSU: Contacts of Structural Units for 1O87
  • Likely Quarternary Molecular Structure file(s) for 1O87
  • Structure Factors (594 Kb)
  • Retrieve 1O87 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1O87 from S2C, [Save to disk]
  • Re-refined 1o87 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1O87 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 1O87
  • 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
  • 3D motif for 1O87, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1o87a1, region A:1-88 [Jmol] [rasmolscript] [script source]
        - Domain d1o87a2, region A:89-295 [Jmol] [rasmolscript] [script source]
        - Domain d1o87b1, region B:1-88 [Jmol] [rasmolscript] [script source]
        - Domain d1o87b2, region B:89-295 [Jmol] [rasmolscript] [script source]
  • 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: [1o87_A] [1o87_B] [1o87]
  • SWISS-PROT database: [O07347]
  • Domain organization of [SRP54_THEAQ] by SWISSPFAM
  • Domains found in 1O87: [AAA] [SRP54] [SRP54_N ] by SMART
    • Other resources with information on 1O87
  • Community annotation for 1O87 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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