4V4J Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome. date
authors Korostelev, A., Trakhanov, S., Asahara, H., Laurberg, M., Noller, H.F.
compound source
symmetry
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R_Free 0.351
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length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.83
note 4V4J supersedes 1VSP, 2QNH
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Primary referenceInteractions and dynamics of the Shine Dalgarno helix in the 70S ribosome., Korostelev A, Trakhanov S, Asahara H, Laurberg M, Lancaster L, Noller HF, Proc Natl Acad Sci U S A. 2007 Oct 23;104(43):16840-3. Epub 2007 Oct 16. PMID:17940016
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1541 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 4V4J
  • Structure Factors (3667 Kb)
  • Retrieve 4V4J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V4J from S2C, [Save to disk]
    • View 4V4J 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 4V4J
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v4j_K] [4v4j_z] [4v4j_h] [4v4j_v] [4v4j_3] [4v4j_s] [4v4j_g] [4v4j_L] [4v4j_w] [4v4j_B] [4v4j_C] [4v4j_U] [4v4j_T] [4v4j_b] [4v4j_r] [4v4j_k] [4v4j_I] [4v4j_N] [4v4j_n] [4v4j_e] [4v4j] [4v4j_O] [4v4j_l] [4v4j_M] [4v4j_y] [4v4j_2] [4v4j_d] [4v4j_F] [4v4j_o] [4v4j_A] [4v4j_a] [4v4j_Z] [4v4j_J] [4v4j_m] [4v4j_E] [4v4j_Y] [4v4j_D] [4v4j_Q] [4v4j_W] [4v4j_c] [4v4j_t] [4v4j_u] [4v4j_p] [4v4j_G] [4v4j_S] [4v4j_P] [4v4j_V] [4v4j_i] [4v4j_j] [4v4j_x] [4v4j_R] [4v4j_f] [4v4j_H] [4v4j_X] [4v4j_q]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V4J: [KH] [KOW] [Ribosomal_L14] [Ribosomal_L2] [Ribosomal_L2_C] [Ribosomal_S10] [Ribosomal_S15] [Ribosomal_S4] [S4 ] by SMART
    • Other resources with information on 4V4J
  • Community annotation for 4V4J at PDBWiki (http://pdbwiki.org)

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