Molecular Movements Database

Molecular Movements Database

This outline presents the current database classified by any classification scheme for which data has been compiled. The original schema which separates motions by type of movement is defined on the help page. Thumbnail images appear for motions which have available movies, and link to the best morph for that particular protein.

Many more movies can be seen here, including structures not represented on this page. The movies page also allows searches for protein names or specific PDB IDs.


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I. Motions of Fragments Smaller than Domains

    A. Motion is predominantly shear

    B. Motion is predominantly hinge

    C. Motion can not be fully classified at present
      F-?-2. Proteins for which two or more conformations are known
      Cytochrome P-450CAM [motion]   [morph]
      Chemotaxis Receptor [motion]   [morph]
      CheY Protein [motion]   [morph]
      Estrogen receptor [motion]   [morph]
      Transcription regulator Fixj [motion]   [morph]
      Glutamine Synthetase [motion]   [morph]
      GroES mobile loop [motion]   [morph]
      Virus MS2 coat protein [ms2coat]
      Bacteriophage Pf1 coat protein [pf1coat]
      Motion of the Purine Repressor upon binding DNA [motion]   [morph]
      Photoactive Yellow Protein (PYP) [motion]   [morph]
      Ribosomal protein S15 [motion]   [morph]
      Stromelysin catalytic domain [motion]   [morph]
      Thaumatin [motion]   [morph]
      Tnf receptor-associated factor 6 (Traf6) [motion]   [morph]
      F-?-1. Proteins for which only one conformation is known but motion is suspected
      Nicotinic Acetylcholine Receptor [achr]
      K channel [kchann]

    D. Motion is not hinge or shear
      F-n-2. Proteins for which two or more conformations are known
      Ribosomal protein L11 [motion]   [morph]
      Lac Repressor (Order-disorder transition of headpiece linker upon binding DNA) [motion]   [morph]
      Ubiquitin conjugating enzyme [motion]   [morph]
      MS2 Phage Coat Protein [motion]   [morph]
      OxyR transcription factor [motion]   [morph]
      Pin1 Peptidyl-Prolyl Cis-Trans Isomerase [motion]   [morph]
      F-n-1. Proteins for which only one conformation is known but motion is suspected

II. Domain Motions

    A. Motion is predominantly shear

    B. Motion is predominantly hinge

    C. Motion can not be fully classified at present
      D-?-2. Proteins for which two or more conformations are known
      Anthrax Toxin Oedema Factor [motion]   [morph]
      Argininosuccinate synthetase [motion]   [morph]
      Adenylosuccinate Snythetase [motion]   [morph]
      CD8 cytotoxic T cell co-receptor [cd8]
      GTP Binding Protein [motion]   [morph]
      Yeast cell-cycle control protein p13suc1 and homan homologue CksHs [ckshs]
      Elongation Factor Tu (EF-Tu) [motion]   [morph]
      Gamma delta resolvase [motion]   [morph]
      Heterotrimeric G protein [gprot]
      Imidazole Glycerol Phosphate Sythase [motion]   [morph]
      Initiation factor 2 [motion]   [morph]
      Myosin [motion]   [morph]
      NF-kappa B [motion]   [morph]
      Serotonin N-Acetyltransferase [motion]   [morph]
      TATA-box Binding Protein (TBP) [motion]   [morph]
      Themolysin, Elastase, neutral proteases [thermo]
      Topoisomerase [motion]   [morph]
      D-?-1. Proteins for which only one conformation is known but motion is suspected
      GCN4 [gcn4]
      Proteinaceous Infectious Particles (Prions) [prion]
      Transducin-a [tducin]

    D. Motion is not hinge or shear
      D-n-2. Proteins for which two or more conformations are known
      aldose reductase [motion]   [morph]
      Immunoglobulin (Fab Elbow Joint) [motion]   [morph]
      D-n-1. Proteins for which only one conformation is known but motion is suspected

    E. Motion involves partial refolding of tertiary structure
      D-f-2. Proteins for which two or more conformations are known
      Bungarotoxin [motion]   [morph]
      G(i alpha 1) [motion]   [morph]
      S. aureus alpha-Hemolysin [motion]   [morph]
      Haemagglutinin [hglut]
      HIV-1 Reverse Transcriptase [motion]   [morph]
      Spindle Assembly Checkpoint Protein [motion]   [morph]
      Release Factor 2 [motion]   [morph]
      Serpins [motion]   [morph]
      D-f-1. Proteins for which only one conformation is known but motion is suspected

III. Larger Movements than Domain Movements involving the Motion of Subunits

    A. Motion involves an allosteric transition
      S-a-2. Proteins for which two or more conformations are known
      Aspartate Transcarbamoylase (ATCase) [motion]   [morph]
      Erythropoietin (binding receptor) [motion]   [morph]
      Fructose-1,6-biphosphatase [motion]   [morph]
      Glycogen Phosphorylase (GP) [motion]   [morph]
      Hemoglobin (Hb) [motion]   [morph]
      Heparin Cofactor II [motion]   [morph]
      Lac Repressor Core (Allosteric Motion) [lacrallo]
      Lac Repressor upon binding DNA (Subunit motion via Tetramerization domain) [lacrdtet]
      Phosphofructokinase [motion]   [morph]
      Prpp synthetase [motion]   [morph]
      VirB11 ATPase (HP0525) [motion]   [morph]
      S-a-1. Proteins for which only one conformation is known but motion is suspected
      Allosteric Motion in the Purine Repressor [purrallo]

    B. Motion does not involves an allosteric transition
      S-n-2. Proteins for which two or more conformations are known
      Alcohol Dehydrogenase Class II (Mouse) [motion]   [morph]
      ArsA ATPase [motion]   [morph]
      Aspartate Receptor [aspr]
      Bam HI Endonuclease [motion]   [morph]
      Immunoglobulin (VL-VH movement) [motion]   [morph]
      ATP-binding cassette protein MalK [motion]   [morph]
      S. cerevisiae PPR1 Zn-finger DNA recognition protein. [ppr1]
      Xrcc4 [motion]   [morph]
      S-n-1. Proteins for which only one conformation is known but motion is suspected
      Erythropoietin Receptor [epr]
      F1-ATPase [f1atpase]
      Polymerase Processivity Factor PCNA [pcna]
      T7 DNA Helicasee [t7helicase]
C----. Complex Protein Motions
Calcium ATPase pump [motion]   [morph]
GroEL [motion]   [morph]
PcrA DNA Helicase [motion]   [morph]
Lac Repressor (Overall motion) [lacr]
Na,K ATPase pump [nakpump]
PI-SceI Endonuclease [motion]   [morph]
Protein-like heteropolymer [plhp]
DNA Polymerase from phage Rb69 [motion]   [morph]
Topoisomerase type II [motion]   [morph]

V. Nucleic Acids

    A. RNA
      N-R-2. Known motions in RNA
      16S fragment of small ribosomal subunit (30S RNA) [motion]   [morph]
      Hammerhead RNA [motion]   [morph]
      P4-P6 Domain from Group-I Intron (a large RNA) [motion]   [morph]
      tRNA [motion]   [morph]

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