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Read about EMPIAR and the EMBL-EBI BioImage Archive in Nature News, 2 March 2020.


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The Electron Microscopy Data Bank (EMDB) at PDBe

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Introduction

The Electron Microscopy Data Bank (EMDB) is a public repository for electron microscopy density maps of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, electron tomography, and electron (2D) crystallography.

The EMDB was founded at EBI in 2002, under the leadership of Kim Henrick. Since 2007 it has been operated jointly by the PDBe, and the Research Collaboratory for Structural Bioinformatics (RCSB PDB) as a part of EMDataBank which is funded by a joint NIH grant to PDBe, the RCSB and the National Center for Macromolecular Imaging (NCMI).


EMDataResource

A wealth of additional resources can be found at EMDataResource including:


Gallery of recent structures

10471 released maps, and 3561 associated publications. Last update: 2020-03-25 - 73 maps released this week


  1. EMD-0740
    EMD-0740
    277 K cryoEM structure of Sso-KARI in complex with magnesium ions
  2. EMD-0742
    EMD-0742
    277 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  3. EMD-0743
    EMD-0743
    343 K cryoEM structure of Sso-KARI in complex with Mg2+
  4. EMD-0746
    EMD-0746
    343 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  5. EMD-0747
    EMD-0747
    298 K cryoEM structure of Sso-KARI in complex with Mg2+
  6. EMD-0748
    EMD-0748
    298 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  7. EMD-0749
    EMD-0749
    309 K cryoEM structure of Sso-KARI in complex with Mg2+
  8. EMD-0750
    EMD-0750
    323 K cryoEM structure of Sso-KARI in complex with Mg2+
  9. EMD-0751
    EMD-0751
    328 K cryoEM structure of Sso-KARI in complex with Mg2+
  10. EMD-0752
    EMD-0752
    309 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  11. EMD-0753
    EMD-0753
    323 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  12. EMD-0754
    EMD-0754
    328 K cryoEM structure of Sso-KARI in complex with Mg2+, NADH and CPD
  13. EMD-0896
    EMD-0896
    High resolution structure of FANCA C-terminal domain (CTD)
  14. EMD-0899
    EMD-0899
    High resolution structure of FANCA C-terminal domain (CTD)
  15. EMD-0900
    EMD-0900
    Structure of FANCA and FANCG Complex
  16. EMD-0901
    EMD-0901
    Structure of N-terminal and C-terminal domains of FANCA
  17. EMD-10093
    EMD-10093
    Structure of the core of the flagellar export apparatus from Vibrio mimicus, the FliPQR-FlhB complex.
  18. EMD-10095
    EMD-10095
    Structure of the FliPQR complex from the flagellar type 3 secretion system of Pseudomonas savastanoi.
  19. EMD-10096
    EMD-10096
    Structure of the FliPQR complex from the flagellar type 3 secretion system of Vibrio mimicus.
  20. EMD-10653
    EMD-10653
    Structure of the core of the flagellar export apparatus from Vibrio mimicus, the FliPQR-FlhB, in amphipol A8-35
  21. EMD-20016
    EMD-20016
    The cryo-EM structure of Jack bean urease: beyond the physical Nyquist limit using the K3 detector
  22. EMD-20460
    EMD-20460
    Escherichia coli RNA polymerase closed complex (TRPc) with TraR and rpsT P2 promoter
  23. EMD-20461
    EMD-20461
    Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1) with TraR and rpsT P2 promoter
  24. EMD-20462
    EMD-20462
    Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1.5a) with TraR and mutant rpsT P2 promoter
  25. EMD-20463
    EMD-20463
    Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi1.5b) with TraR and mutant rpsT P2 promoter
  26. EMD-20464
    EMD-20464
    Escherichia coli RNA polymerase promoter unwinding intermediate (TRPi2) with TraR and rpsT P2 promoter
  27. EMD-20465
    EMD-20465
    Escherichia coli RNA polymerase promoter unwinding intermediate (TpreRPo) with TraR and rpsT P2 promoter
  28. EMD-20466
    EMD-20466
    Escherichia coli RNA polymerase promoter unwinding intermediate (TRPo) with TraR and rpsT P2 promoter
  29. EMD-20503
    EMD-20503
    Subtomogram average of a purified Leptospira biflexa -fcpB mutant flagellum
  30. EMD-20504
    EMD-20504
    10 Angstrom structure of the asymmetric flagellar filament purified from Leptospira biflexa Patoc WT cells resolved via subtomogram averaging
  31. EMD-20537
    EMD-20537
    cryo-EM structure of human NKCC1
  32. EMD-20607
    EMD-20607
    Structure of the S. cerevisiae replicative helicase CMG in complex with a forked DNA
  33. EMD-20650
    EMD-20650
    Calcium-bound MthK gating ring state 2
  34. EMD-20652
    EMD-20652
    Calcium-bound MthK gating ring state 1
  35. EMD-20653
    EMD-20653
    Calcium-bound MthK closed state
  36. EMD-20662
    EMD-20662
    Calcium-bound MthK open-inactivated state 1
  37. EMD-20663
    EMD-20663
    MthK closed state with EDTA
  38. EMD-20664
    EMD-20664
    Calcium-bound MthK open-inactivated state 2
  39. EMD-20687
    EMD-20687
    Human IMPDH2 treated with ATP, IMP, and NAD+. Filament assembly interface reconstruction.
  40. EMD-20688
    EMD-20688
    Human IMPDH2 treated with ATP, IMP, and NAD+. Fully extended filament segment reconstruction.
  41. EMD-20690
    EMD-20690
    Human IMPDH2 treated with ATP, IMP, and NAD+. Bent (1/4 compressed, 3/4 extended) segment reconstruction.
  42. EMD-20691
    EMD-20691
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Filament assembly interface reconstruction.
  43. EMD-20701
    EMD-20701
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Fully compressed filament segment reconstruction.
  44. EMD-20704
    EMD-20704
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Bent (2/4 compressed, 2/4 extended) segment reconstruction.
  45. EMD-20705
    EMD-20705
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Bent (3/4 compressed, 1/4 extended) segment reconstruction.
  46. EMD-20706
    EMD-20706
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Free interfacial octamer reconstruction.
  47. EMD-20707
    EMD-20707
    Human IMPDH2 treated with ATP, IMP, NAD+, and 2 mM GTP. Free canonical octamer reconstruction.
  48. EMD-20709
    EMD-20709
    Human IMPDH2 treated with ATP and NAD+. Fully compressed filament segment reconstruction.
  49. EMD-20716
    EMD-20716
    Human IMPDH2 treated with ATP and NAD+. Fully extended filament segment reconstruction.
  50. EMD-20718
    EMD-20718
    Human IMPDH2 treated with ATP and NAD+. Filament assembly interface reconstruction.
  51. EMD-20722
    EMD-20722
    Human IMPDH2 treated with ATP and IMP. Fully extended filament segment reconstruction.
  52. EMD-20723
    EMD-20723
    Human IMPDH2 treated with ATP and IMP. Filament assembly interface reconstruction.
  53. EMD-20725
    EMD-20725
    Human IMPDH2 treated with ATP and 2 mM GTP. Free canonical octamer reconstruction.
  54. EMD-20741
    EMD-20741
    Human IMPDH2 treated with ATP, IMP, and 20 mM GTP. Fully compressed filament segment reconstruction.
  55. EMD-20742
    EMD-20742
    Human IMPDH2 treated with ATP, IMP, and 20 mM GTP. Filament assembly interface reconstruction.
  56. EMD-20743
    EMD-20743
    Human IMPDH2 treated with ATP, IMP, and 20 mM GTP. Fully compressed filament end reconstruction.
  57. EMD-20883
    EMD-20883
    CryoEM Structure of the active Adrenomedullin 1 receptor G protein complex with adrenomedullin peptide
  58. EMD-20935
    EMD-20935
    SWI/SNF nucleosome complex with ATP-gamma-S
  59. EMD-21317
    EMD-21317
    Mammalian V-ATPase from rat brain with the Legionella pneumophila effector protein SidK - rotational state 1 non-uniform refinement
  60. EMD-21318
    EMD-21318
    Mammalian V-ATPase from rat brain with the Legionella pneumophila effector protein SidK - rotational state 2 non-uniform refinement
  61. EMD-21319
    EMD-21319
    Mammalian V-ATPase from rat brain with the Legionella pneumophila effector protein SidK - rotational state 3 non-uniform refinement
  62. EMD-21443
    EMD-21443
    BurrH bound to DNA Origami Goniometer
  63. EMD-21479
    EMD-21479
    Class 2 from 3D classification of Bacillus subtilus delta HPF ribosomes
  64. EMD-21480
    EMD-21480
    Class 3 from 3D classification of Bacillus subtilus delta HPF ribosomes
  65. EMD-30028
    EMD-30028
    cryo-EM structure of human Pannexin 1 channel
  66. EMD-4567
    EMD-4567
    Thermophage P23-45 in situ procapsid portal protein
  67. EMD-4620
    EMD-4620
    A dimer component of alpha-1 antitrypsin heat-induced polymers generated from wild-type M plasma protein and decorated with Fab 4B12
  68. EMD-4631
    EMD-4631
    A dimer component of alpha-1 antitrypsin polymers isolated from ZZ explant liver tissue and decorated with Fab 4B12 (component B with ~90 degree rotation around the dimer axis)
  69. EMD-4632
    EMD-4632
    A dimer component of alpha-1 antitrypsin polymers isolated from ZZ explant liver tissue and decorated with Fab 4B12 (component A with ~60 degree rotation around the dimer axis)
  70. EMD-4975
    EMD-4975
    Haemonchus galactose containing glycoprotein complex
  71. EMD-4976
    EMD-4976
    Haemonchus sialylated galactose containing glycoprotein complex
  72. EMD-9858
    EMD-9858
    Structure of the archaeal Archaeoglobus fulgidus oligosaccharyltransferase (AfAglB-L) embedded in nanodisc
  73. EMD-9859
    EMD-9859
    Structure of the archaeal Archaeoglobus fulgidus oligosaccharyltransferase (AfAglB-L) trapped in amphipol