1SI2 Gene Regulation Rna Dna date Feb 26, 2004
title Crystal Structure Of The Paz Domain Of Human Eif2c1 In Compl 9-Mer Sirna-Like Duplex Of Deoxynucleotide Overhang
authors K.Ye, J.B.Ma, D.Patel
compound source
Molecule: 5'-R(Cpgpupgpapcpu)-D(Pcpt)-3'
Chain: B
Engineered: Yes
 Synthetic: Yes

Molecule: Eukaryotic Translation Initiation Factor 2c 1
Chain: A
Fragment: Paz Domain (Residues 225-369)
Synonym: Eif2c 1, Eif-2c 1, Putative Rna-Binding Protein Q9 Argonaute 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eif2c1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet19b
symmetry Space Group: P 64
R_factor 0.221 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.051 100.051 34.438 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
related structures by homologous chain: 1SI3
Primary referenceStructural basis for overhang-specific small interfering RNA recognition by the PAZ domain., Ma JB, Ye K, Patel DJ, Nature 2004 May 20;429(6989):318-22. PMID:15152257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (1si2.pdb1.gz) 47 Kb
  • CSU: Contacts of Structural Units for 1SI2
  • Likely Quarternary Molecular Structure file(s) for 1SI2
  • Structure Factors (54 Kb)
  • Retrieve 1SI2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SI2 from S2C, [Save to disk]
  • Re-refined 1si2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1SI2 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 1SI2
  • 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 1SI2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1si2a_, region A [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1si2_A] [1si2] [1si2_B]
  • SWISS-PROT database: [Q9UL18]
  • Domain organization of [AGO1_HUMAN] by SWISSPFAM
  • Domain found in 1SI2: [PAZ ] by SMART
    • Other resources with information on 1SI2
  • Community annotation for 1SI2 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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