5MDZ Ribosome date 6-1 20, 1999
authors N.R.James, A.Brown, Y.Gordiyenko, V.Ramakrishnan
compound source
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method X-Ray Diffractionresolution
Gene
Ontology
ChainFunctionProcessComponent
B


C


D


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F


G


H


I


J


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L


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N


O


P


Q
  • translation repressor activi...


    • R


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    V


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    a


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  • mRNA binding involved in pos...


    • u
  • nuclease activity
  • endonuclease activity
  • endodeoxyribonuclease activi...


    • v


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    y
  • ornithine decarboxylase inhi...


    • z


    Primary referenceTranslational termination without a stop codon., James NR, Brown A, Gordiyenko Y, Ramakrishnan V, Science. 2016 Dec 16;354(6318):1437-1440. Epub 2016 Dec 1. PMID:27934701
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1923 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 5MDZ
  • Retrieve 5MDZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MDZ from S2C, [Save to disk]
    • View 5MDZ 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 5MDZ
  • 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: [5mdz_w] [5mdz_l] [5mdz_W] [5mdz_R] [5mdz_y] [5mdz_H] [5mdz_n] [5mdz_u] [5mdz_O] [5mdz_V] [5mdz_a] [5mdz_i] [5mdz] [5mdz_U] [5mdz_q] [5mdz_j] [5mdz_e] [5mdz_5] [5mdz_Z] [5mdz_r] [5mdz_b] [5mdz_z] [5mdz_m] [5mdz_o] [5mdz_k] [5mdz_K] [5mdz_f] [5mdz_2] [5mdz_F] [5mdz_L] [5mdz_N] [5mdz_P] [5mdz_Q] [5mdz_d] [5mdz_X] [5mdz_x] [5mdz_p] [5mdz_4] [5mdz_h] [5mdz_J] [5mdz_I] [5mdz_3] [5mdz_Y] [5mdz_C] [5mdz_T] [5mdz_c] [5mdz_E] [5mdz_B] [5mdz_S] [5mdz_v] [5mdz_s] [5mdz_1] [5mdz_G] [5mdz_t] [5mdz_g] [5mdz_M] [5mdz_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5MDZ
  • Community annotation for 5MDZ at PDBWiki (http://pdbwiki.org)

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