1I94 Ribosome date Mar 18, 2001
title Crystal Structures Of The Small Ribosomal Subunit With Tetra Edeine And If3
authors M.Pioletti, F.Schluenzen, J.Harms, R.Zarivach, M.Gluehmann, H.Avi H.Bartels, C.Jacobi, T.Hartsch, A.Yonath, F.Franceschi
compound source
Molecule: 16s Rrna
Chain: A
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S2
Chain: B
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S3
Chain: C
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S4
Chain: D
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S5
Chain: E
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S6
Chain: F
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S7
Chain: G
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S8
Chain: H
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S9
Chain: I
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S10
Chain: J
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S11
Chain: K
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S12
Chain: L
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S13
Chain: M
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S14
Chain: N
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S15
Chain: O
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S16
Chain: P
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S17
Chain: Q
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S18
Chain: R
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S19
Chain: S
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein S20
Chain: T
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: 30s Ribosomal Protein Thx
Chain: U
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
symmetry Space Group: P 41 21 2
R_factor 0.203 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
406.300 406.300 173.100 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand MG, WO2, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
B


C


D


E


F


G


H


I


J


K


L


M


N


O


P


Q


R


S


T


U


Primary referenceCrystal structures of complexes of the small ribosomal subunit with tetracycline, edeine and IF3., Pioletti M, Schlunzen F, Harms J, Zarivach R, Gluhmann M, Avila H, Bashan A, Bartels H, Auerbach T, Jacobi C, Hartsch T, Yonath A, Franceschi F, EMBO J 2001 Apr 17;20(8):1829-39. PMID:11296217
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (810 Kb) [Save to disk]
  • Biological Unit Coordinates (1i94.pdb1.gz) 791 Kb
  • LPC: Ligand-Protein Contacts for 1I94
  • CSU: Contacts of Structural Units for 1I94
  • Likely Quarternary Molecular Structure file(s) for 1I94
  • Retrieve 1I94 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I94 from S2C, [Save to disk]
    • View 1I94 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 1I94
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1I94, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i94b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1i94c2, region C:107-207 [Jmol] [rasmolscript] [script source]
        - Domain d1i94c1, region C:2-106 [Jmol] [rasmolscript] [script source]
        - Domain d1i94d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1i94e2, region E:2-73 [Jmol] [rasmolscript] [script source]
        - Domain d1i94e1, region E:74-157 [Jmol] [rasmolscript] [script source]
        - Domain d1i94f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1i94g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1i94h_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1i94i_, region I [Jmol] [rasmolscript] [script source]
        - Domain d1i94j_, region J [Jmol] [rasmolscript] [script source]
        - Domain d1i94k_, region K [Jmol] [rasmolscript] [script source]
        - Domain d1i94l_, region L [Jmol] [rasmolscript] [script source]
        - Domain d1i94m_, region M [Jmol] [rasmolscript] [script source]
        - Domain d1i94n_, region N [Jmol] [rasmolscript] [script source]
        - Domain d1i94o_, region O [Jmol] [rasmolscript] [script source]
        - Domain d1i94p_, region P [Jmol] [rasmolscript] [script source]
        - Domain d1i94q_, region Q [Jmol] [rasmolscript] [script source]
        - Domain d1i94r_, region R [Jmol] [rasmolscript] [script source]
        - Domain d1i94s_, region S [Jmol] [rasmolscript] [script source]
        - Domain d1i94t_, region T [Jmol] [rasmolscript] [script source]
        - Domain d1i94u_, region U [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: [1i94_S] [1i94_F] [1i94_N] [1i94_R] [1i94_G] [1i94_I] [1i94_L] [1i94_A] [1i94_C] [1i94_U] [1i94_P] [1i94_B] [1i94_M] [1i94_J] [1i94_K] [1i94] [1i94_D] [1i94_E] [1i94_Q] [1i94_H] [1i94_T] [1i94_O]
  • SWISS-PROT database: [Q5SHN7] [P80376] [Q5SHN3] [P80377] [Q5SHQ1] [Q5SJ76] [Q5SJH3] [Q5SHP7] [Q5SLQ0] [Q5SHP2] [P80380] [P80371] [P80372] [P80373] [Q5SHQ5] [Q5SLP8] [P17291] [Q5SHQ2] [P62669] [P80374] [Q5SIH3]
  • Domain organization of [RS10_THET8] [RS11_THET8] [RS12_THET8] [RS13_THET8] [RS14Z_THET8] [RS15_THET8] [RS16_THET8] [RS17_THET8] [RS18_THET8] [RS19_THET8] [RS20_THET8] [RS2_THET8] [RS3_THET8] [RS4_THET8] [RS5_THET8] [RS6_THET8] [RS7_THET8] [RS8_THET8] [RS9_THET2] [RS9_THET8] [RSHX_THET8] by SWISSPFAM
  • Domains found in 1I94: [KH] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
    • Other resources with information on 1I94
  • Community annotation for 1I94 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1I94 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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