1SDS Protein Rna Complex date Feb 13, 2004
title Structure Of Protein L7ae Bound To A K-Turn Derived From An Box Haca Srna
authors T.Hamma, A.Ferre-D'Amare
compound source
Molecule: Box Haca Srna
Chain: D, E, F
Engineered: Yes
Synthetic: Yes

Molecule: 50s Ribosomal Protein L7ae
Chain: A, B, C
Engineered: Yes

Organism_scientific: Methanocaldococcus Jannaschii
Organism_taxid: 2190
Gene: Rpl7ae, Mj1203
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus (De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet16b Derivative
symmetry Space Group: F 2 2 2
R_factor 0.207 R_Free 0.225
length a length b length c angle alpha angle beta angle gamma
106.970 141.300 162.870 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CA, K enzyme
related structures by homologous chain: 1RA4
A, C, B
  • ribonuclease P activity

  • Primary referenceStructure of Protein L7Ae Bound to a K-Turn Derived from an Archaeal Box H/ACA sRNA at 1.8 A Resolution., Hamma T, Ferre-D'Amare AR, Structure (Camb) 2004 May;12(5):893-903. PMID:15130481
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (1sds.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 1SDS
  • CSU: Contacts of Structural Units for 1SDS
  • Likely Quarternary Molecular Structure file(s) for 1SDS
  • Structure Factors (600 Kb)
  • Retrieve 1SDS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SDS from S2C, [Save to disk]
  • Re-refined 1sds structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1SDS 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 1SDS
  • 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 1SDS, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sdsa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1sdsb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1sdsc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1sds from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1sds_A] [1sds_C] [1sds_E] [1sds] [1sds_D] [1sds_F] [1sds_B]
  • SWISS-PROT database: [P54066]
  • Domain organization of [RL7A_METJA] by SWISSPFAM
  • Other resources with information on 1SDS
  • Community annotation for 1SDS 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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