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The Electron Microscopy Data Bank (EMDB) at PDBe

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EMDB entries with fitted PDB models
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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

14303 released maps, and 4528 associated publications. Last update: 2021-03-03 - 85 maps released this week


  1. EMD-11280
    EMD-11280
    Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide, local-masked aligned on CP
  2. EMD-11281
    EMD-11281
    Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide, local-masked aligned on L10-L7/L12-stalk
  3. EMD-11282
    EMD-11282
    Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide, local-masked aligned on SSU body
  4. EMD-11283
    EMD-11283
    Human mitochondrial ribosome in complex with OXA1L, mRNA, A/A tRNA, P/P tRNA and nascent polypeptide, local-masked aligned on SSU head
  5. EMD-11284
    EMD-11284
    Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA, local-masked aligned on CP
  6. EMD-11285
    EMD-11285
    Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA, local-masked aligned on L10-L7/L12-stalk
  7. EMD-11286
    EMD-11286
    Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA, local-masked aligned on SSU body
  8. EMD-11287
    EMD-11287
    Human mitochondrial ribosome in complex with mRNA, A/A tRNA and P/P tRNA, local-masked aligned on SSU head.
  9. EMD-12137
    EMD-12137
    Native virion of Kashmir bee virus at acidic pH
  10. EMD-12214
    EMD-12214
    human complex II-BATS bound to membrane-attached Rab5a-GTP
  11. EMD-12221
    EMD-12221
    VPS26 dimer region of metazoan membrane-assembled retromer:SNX3 complex
  12. EMD-12224
    EMD-12224
    Vps26 dimer region of the fungal membrane-assembled retromer:Grd19 complex.
  13. EMD-12274
    EMD-12274
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab
  14. EMD-12275
    EMD-12275
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-88 Fab
  15. EMD-12276
    EMD-12276
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-150 Fab
  16. EMD-12277
    EMD-12277
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-40 Fab
  17. EMD-12278
    EMD-12278
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-316 Fab
  18. EMD-12279
    EMD-12279
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-384 Fab
  19. EMD-12280
    EMD-12280
    EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-253H55L Fab
  20. EMD-12281
    EMD-12281
    EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-253H55L Fab
  21. EMD-12282
    EMD-12282
    EM structure of SARS-CoV-2 Spike glycoprotein in complex with COVOX-253H165L Fab
  22. EMD-12283
    EMD-12283
    EM structure of SARS-CoV-2 Spike glycoprotein (all RBD down) in complex with COVOX-159
  23. EMD-12284
    EMD-12284
    EM structure of SARS-CoV-2 Spike glycoprotein (one RBD up) in complex with COVOX-159
  24. EMD-21448
    EMD-21448
    CON-S ch.ds.SOSIP HIV trimer bound to DH840 Fab
  25. EMD-21449
    EMD-21449
    CON-S ch.DS.SOSIP HIV trimer bound to DH842 Fab
  26. EMD-21450
    EMD-21450
    CON-S ch.DS.SOSIP HIV trimer bound to DH845 Fab
  27. EMD-21451
    EMD-21451
    CON-S ch.DS.SOSIP HIV trimer bound to DH846 Fab
  28. EMD-21465
    EMD-21465
    One class of MscS in PC-18:1 nanodiscs treated with beta-cyclodextran for 30 min
  29. EMD-21466
    EMD-21466
    Cryo-EM structure of mechanosensitive channel MscS A106V mutant in DDM
  30. EMD-22040
    EMD-22040
    Asterix/Gtsf1 from mouse (full-length protein) bound to co-purifying tRNA
  31. EMD-22041
    EMD-22041
    Asterix/Gtsf1 from mouse (residues 1-45; zinc finger 1) bound to co-purifying tRNA
  32. EMD-22284
    EMD-22284
    Head-Middle module of Mediator
  33. EMD-22342
    EMD-22342
    Cryo-EM reconstruction of a proton-activated chloride channel at 6.2 Angstrom resolution
  34. EMD-22343
    EMD-22343
    Cryo-EM structure of a proton-activated chloride channel
  35. EMD-22397
    EMD-22397
    Tail module of Mediator complex
  36. EMD-22551
    EMD-22551
    Polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 36 at day 28
  37. EMD-22552
    EMD-22552
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 36 at day 500
  38. EMD-22553
    EMD-22553
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 7
  39. EMD-22554
    EMD-22554
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 7
  40. EMD-22555
    EMD-22555
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 21
  41. EMD-22556
    EMD-22556
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 28
  42. EMD-22557
    EMD-22557
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 28
  43. EMD-22558
    EMD-22558
    Polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 43 at day 28
  44. EMD-22559
    EMD-22559
    Polyclonal immune complex of Fab binding the stem of H5 HA from serum of subject 43 at day 100
  45. EMD-22560
    EMD-22560
    Polyclonal immune complex of Fab binding the receptor binding site region of H5 HA from serum of subject 43 at day 100
  46. EMD-23057
    EMD-23057
    rFVIIIFc-VWF-XTEN (BIVV001)
  47. EMD-23149
    EMD-23149
    Cryo-electron microscopy reconstruction of antibody DH898.1 Fab-dimer bound near the CD4 binding site of HIV Env SOSIP trimer CH848 10.17
  48. EMD-23152
    EMD-23152
    Cryo-electron microscopy reconstruction of antibody DH898.1 Fab-dimer bound to glycans 332, 392, and 396 of HIV Env CH848 10.17 SOSIP trimer
  49. EMD-23153
    EMD-23153
    Cryo-electron microscopy local refinement of antibody DH898.1 Fab-dimer bound to glycans 332, 392, and 396 of HIV Env CH848 10.17 SOSIP trimer
  50. EMD-23244
    EMD-23244
    Structure of human SHLD2-SHLD3-REV7-TRIP13(E253Q) complex
  51. EMD-23313
    EMD-23313
    Negative stain map of monoclonal Fab 23 binding the lateral patch of H1 HA
  52. EMD-23314
    EMD-23314
    Negative stain map of monoclonal Fab 45 binding the esterase domain of H1 HA
  53. EMD-23315
    EMD-23315
    Negative stain map of monoclonal Fab 50 binding the lateral patch of H1 HA
  54. EMD-23316
    EMD-23316
    Negative stain map of monoclonal Fab 56 binding the lateral patch of H1 HA
  55. EMD-23317
    EMD-23317
    Negative stain map of monoclonal Fab 68 binding the Sa antigenic site of H1 HA
  56. EMD-23318
    EMD-23318
    Negative stain map of monoclonal Fab 76 binding the stem of H1 HA
  57. EMD-23319
    EMD-23319
    CryoEM map of monoclonal Fabs 45 and 56 binding the esterase and lateral patch of H1 HA
  58. EMD-23355
    EMD-23355
    Structure of dNTPase at 3.3 Angstrom Resolution
  59. EMD-23356
    EMD-23356
    Structure of dNTPase at 3.6 Angstrom Resolution
  60. EMD-23357
    EMD-23357
    Structure of 80S ribosome from EMPIAR-10064 at 5.6 Angstrom Resolution
  61. EMD-23358
    EMD-23358
    Structure of E. coli 70S ribosome from EMPIAR-10304 at 4.8 Angstrom Resolution
  62. EMD-23390
    EMD-23390
    Allosteric modulator LY3154207 binding to SKF-81297-bound dopamine receptor 1 in complex with miniGs protein
  63. EMD-23391
    EMD-23391
    Allosteric modulator LY3154207 binding to dopamine-bound dopamine receptor 1 in complex with miniGs protein
  64. EMD-23409
    EMD-23409
    Structure of ATP-free human ABCA4
  65. EMD-23410
    EMD-23410
    Structure of ATP-bound human ABCA4
  66. EMD-23413
    EMD-23413
    Structure of human ATP citrate lyase in complex with acetyl-CoA and oxaloacetate (EM map was generated in Cryosparc with non-uniform refinement)
  67. EMD-23522
    EMD-23522
    Human TRiC in ATP/AlFx closed state
  68. EMD-23526
    EMD-23526
    Human TRiC/CCT complex with reovirus outer capsid protein sigma-3
  69. EMD-30064
    EMD-30064
    Clam-shaped joint of double-headed nucleocapsid of Sendai Virus
  70. EMD-30065
    EMD-30065
    helical stem of double-headed nucleocapsid of Sendai virus in 4.6 angstrom resolution
  71. EMD-30066
    EMD-30066
    Helical stem of double-headed nucleocapsid of Sendai virus in 4.1 angstrom resolution
  72. EMD-30240
    EMD-30240
    The cryo-EM density map of CENP-A nucleosome in complex with CENP-C C-terminal domain
  73. EMD-30241
    EMD-30241
    The cryo-EM density map of CENP-A nucleosome in complex with asymmetric CENP-C C-terminal domain and CENP-N N-terminal domain
  74. EMD-30392
    EMD-30392
    Cryo-EM structure of Fenoldopam bound dopamine receptor DRD1-Gs signaling complex
  75. EMD-30393
    EMD-30393
    Cryo-EM structure of A77636 bound dopamine receptor DRD1-Gs signaling complex
  76. EMD-30394
    EMD-30394
    Cryo-EM structure of PW0464 bound dopamine receptor DRD1-Gs signaling complex
  77. EMD-30395
    EMD-30395
    Cryo-EM structure of Dopamine and LY3154207 bound dopamine receptor DRD1-Gs signaling complex
  78. EMD-30416
    EMD-30416
    Cryo-EM structure of bat RaTG13 spike glycoprotein
  79. EMD-30418
    EMD-30418
    Cryo-EM structure of PCoV_GX spike glycoprotein
  80. EMD-30452
    EMD-30452
    Cryo-EM structure of SKF83959 bound dopamine receptor DRD1-Gs signaling complex
  81. EMD-30507
    EMD-30507
    Protrusion structure of Omono River virus
  82. EMD-30536
    EMD-30536
    Photosystem I-LHCI-LHCII of Chlamydomonas reinhardtii
  83. EMD-30537
    EMD-30537
    Cryo-EM map of Omono River virus (Strain: LZ) full capsid with its fiber-like protrusion anchored at the five-fold vertex.
  84. EMD-30538
    EMD-30538
    Cryo-EM map of Omono River virus (strain:LZ) full capsid at protrusion-free status.
  85. EMD-30539
    EMD-30539
    Cryo-EM map of Omono River virus (strain: LZ) empty capsid.