Happy Holidays & Happy New Year from the EMDB team! During this period (23rd December - 6th January) the EMDB team and our OneDep curators will be working at reduced capacity. We will continue to run the weekly release of entries as normal, but entry annotation & support may be slower than usual. Thanks for your understanding.
The Electron Microscopy Data Bank (EMDB) is a public repository for cryogenic-sample Electron Microscopy (cryoEM) volumes and representative tomograms of macromolecular complexes and subcellular structures. It covers a variety of techniques, including single-particle analysis, helical reconstruction, electron tomography, subtomogram averaging, and electron crystallography. More...
As of 18 December 2024, EMDB contains 41110 entries (latest entries, trends).
EMDB News
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06 January 2024: We are delighted to share that EMDB has officially been elevated to a Core Data Resource by ELIXIR, recognising it as a European data resource of fundamental importance to the wider life-science community and the long-term preservation of biological data.
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22 November 2023: We are happy to share the most recent version of the EMDB Nucleic Acids Research paper. The paper describes recent developments and future plans of the EMDB in the context of the worldwide Protein Data Bank. Check it out now! https://doi.org/10.1093/nar/gkad1019
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Cryo-EM structure of IrtAB in inward-facing state under turnover conditions in LMNG
Lipid droplets closely interacting with an endoplasmic reticulum found in the thin edge of an U2OS cell.
Structure of the FDX2-bound core ISC complex (distal conformation)
Cryo-EM structure of S. cerevisiae Rai1-Rat1-Rtt103(252-273) complex.
Cryo-EM structure of IrtAB 2xEQ mutant in outward-occluded state in complex with mycobactin
RyR1 in reconstitute in liposome in primed state in complex with nanobody and FKBP12
Structure of the FDX2-bound core ISC complex (proximal conformation)
Cryo-EM structure of human CD163 SRCR1-9 in complex with haptoglobin-hemoglobin
Glucose-6-phosphate dehydrogenase (G6PDH) in complex with protein OpcA from Synechocystis sp. PCC 6803, consensus map
Structure of the core ISC complex under turnover conditions (FDX2-bound in proximal conformation)
Glucose-6-phosphate dehydrogenase (G6PDH) in complex with protein OpcA from Synechocystis sp. PCC 6803
Lipid droplet coated with clathrin found in the thin edge of an U2OS cell.
Human AP-3 dimer bound to myristoylated Arf1 (Q71L) and LAMP1 cargo on a lipid nanodisc
Cryo-EM structure of Apoferritin collected by SerialEM on Glacios at 2.1 Angstrom resolution
CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab 65C6 and an auto glycan occupying the receptor-binding site
KZ52 Fab fragment bound to Ebola GP, subtomogram average from a cylinder mask
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P in complex with MERS S-2P
Inward-facing, ligand-free Multidrug Resistance-associated protein 2 (MRP2)
Structure of the KEOPS complex (Cgi121/Bud32/Kae1/Pcc1) bound to tRNA in a distorted tRNA conformation
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P-T33_dn10 in complex with MERS S-2P
Cryo-EM structure of Apoferritin collected by EPU on Glacios at 2.5 Angstrom resolution
QUS bound active mGlu5 in complex with Nb43, local refinement on the TM region
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, bp +27
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-FACT nucleosome upstream
SARS-CoV-2 endoribonuclease Nsp15 bound to dsRNA with 1 nucleotide bulge
Structure of PDE6C in complex with inhibitory cone p gamma in the presence of cGMP
QUS bound active mGlu5 in complex with Nb43, non-uniform refinement on the whole complex
Subtomogram averaging of MRV star core from cells 48 h post infection
CryoEM structure of nitrogenase MoFe-protein 60 minute time point under alkaline turnover
CDDPPB, QUS bound mGlu5 in complex with Nb43, local refinement on the VFT region
CDPPB, QUS bound mGlu5 in complex with Nb43, non uniform refinement of the whole complex
AP-3 bound to myristoylated Arf1 and LAMPI on a lipid nanodisc; focus refinement 1
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P-T33_dn10 in complex with MERS S-2P
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV RBD-I53-50 in complex with MERS S-2P
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P in complex with MERS S-2P
Outward-facing, ATP-bound Multidrug Resistance-associated Protein 2 (MRP2) (E1462Q)
CryoEM structure of nitrogenase MoFe-protein 5 minute time point under alkaline turnover
KZ52 Fab fragment bound to Ebola GP, subtomogram average from a tight mask
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 30 bp upstream
Structure of the KEOPS complex (Cgi121/Bud32/Kae1/Pcc1) bound to tRNA in its native-like conformation.
Structure of PDE6C in complex with the rod inhibitory p gamma subunit in the presence of cGMP
AP-3 bound to myristoylated Arf1 and LAMPI on a lipid nanodisc; concensus refinement
CDPPB bound inactive mGlu5, non-uniform refinement of the whole complex
CryoEM structure of nitrogenase MoFe-protein 20 minute time point under alkaline turnover
Subtomogram averaging of MRV virion from cells 48 h post infection
Actin-binding domain of Legionella pneumophila effector LFAT1 (lpg1387) bound to F-actin
TM region local refinement of CDPPB, QUS bound mGlu5 in complex with Nb43
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV NTD-I53-50 in complex with MERS S-2P
Cryo-EM structure of E. coli FimH lectin domain bound to Fabs 329-2 and 454-3
Structure of PDE6C in complex with the rod inhibitory p gamma subunit with disordered GafA region
AP-3 bound to myristoylated Arf1 and LAMPI on a lipid nanodisc; focus refinement 2
QUS bound inactive mGlu5 in complex with Nb43, local refinement on the TM region
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P-I53-50 in complex with MERS S-2P
CryoEM structure of alkaline-inactivated nitrogenase MoFe-protein in complex with NafT
3A6 and KZ52 Fab fragments bound to Ebola GP, subtomogram average from a cylinder mask
3A6 Fab fragment bound to Ebola GP, subtomogram average from a cylinder mask
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV RBD-I53-50 in complex with MERS S-2P
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV RBD-I53-50 in complex with MERS S-2P
Structure of PDE6C in complex with the rod inhibitory p gamma subunit in the absence of added cGMP
Structure of a SARS-CoV-2 spike S2 subunit in a pre-fusion, open conformation
Leukotriene C4-bound Multidrug Resistance-associated Protein 2 (MRP2)
Subtomogram averaging of MRV outer shell from cells 48 h post infection
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 20 bp upstream
Subtomogram averaging of MRV empty virion from cells 48 h post infection
Negative stain EM map of polyclonal serum from mouse immunized with MERS-CoV S-2P-I53-50 in complex with MERS S-2P
QUS bounds mGlu5 in complex with Nb43, non uniform refinement on the whole complex
3A6 and KZ52 Fab fragments bound to Ebola GP, subtomogram average from a tight mask
CryoEM structure of nitrogenase MoFe-protein 20 second time point under alkaline turnover
Inward-facing, ATP-bound Multidrug Resistance-associated Protein 2 (MRP2) (E1462Q)
AP-3 bound to myristoylated Arf1 (Q71L) and LAMPI on a lipid nanodisc; combined map
Dual receptor-binding, infectivity, and transmissibility of an emerging H2N2 avian influenza virus
Dual receptor-binding, infectivity, and transmissibility of an emerging H2N2 avian influenza virus
Cryo-EM structure of integrin ITGAV/ITGB3 complex, conformation 1
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Structure of the Argonaute protein from Kurthia massiliensis in complex with guide DNA and 19-mer target RNA
Cryo-EM structure of integrin ITGAV/ITGB3 complex, conformation 2
Cryo-EM structure of integrin ITGAV/ITGB3 complex, conformation 4
Cryo-EM structure of integrin ITGAV, ITGB3 and CYCLO (RGDFK) complex, conformation 2
Immune complex of W328-6H2 IgG binding the RBD of SARS-CoV-1 2p spike protein
Cryo-EM structure of SARS-CoV-2 WT 6p spike protein in complex with W328-6H2 IgG
Cryo-EM structure of human 26S proteasomal RP subcomplex (Ea state) bound to K11/K48-branched ubiquitin (Ub) chain composed of three Ub.
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM structure of Mycobacterium tuberculosis transcription activation complex with six PhoP molecules
The structure determination of prokaryotic Glycerol-3-phosphate Acyltransferase
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM structure of integrin ITGAV/ITGB3 complex, conformation 5
Structure of the Argonaute protein from Kurthia massiliensis in complex with guide DNA and 19-mer target DNA in pre-cleavage state
Immune complex of W328-6H2 IgG binding the RBD of Omicron BA.1 6p spike protein
Cryo-EM structure and rational engineering of a novel efficient ochratoxin A-detoxifying amidohydrolase
Cryo-EM structure of SARS-CoV-1 2p RBD in complex with W328-6H2(local refinement)
Cryo-EM structure of integrin ITGAV, ITGB3 and Cilengitide TFA complex, conformation 1
Immune complex of W328-6H2 IgG binding the RBD of SARS-CoV-2 WT 6p spike protein
Cryo-EM structure of Omicron BA.1 6p spike protein in complex with W328-6H2 IgG
Cryo-EM structure of Ca2+-bound TMEM16A in complex with Tamsulosin
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM structure of SARS-CoV-2 WT RBD in complex with W328-6H2 (local refinement)
Cryo-EM structure of integrin ITGAV, ITGB3 and Cilengitide TFA complex, conformation 2
Dual receptor-binding, infectivity, and transmissibility of an emerging H2N2 avian influenza virus
Human ACE2 binding the complex of Omicron BA.1 6p spike protein and W328-6H2 IgG
Immune complex of W328-6H2 Fab binding the RBD of SARS-CoV-1 2p spike protein
Cryo-EM structure of SARS-CoV-1 2p spike protein in complex with W328-6H2 IgG
Dual receptor-binding, infectivity, and transmissibility of an emerging H2N2 avian influenza virus
Cryo-EM structure of Omicron BA.1 RBD in complex with W328-6H2 (local refinement)
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Immune complex of W328-6H2 Fab binding the RBD of SARS-CoV-2 WT 6p spike protein
G1 nucleosome with gyre proximal density, with glycerol cryoprotectant
Structure of photosynthetic LH1-RC complex from the purple bacterium Blastochloris tepida
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM map of the E2 inner core component of pyruvate dehydrogenase complex
Cryo-EM structure of human 26S proteasomal RP subcomplex (Ea state) without any bound substrate.
Cryo-EM structure of integrin ITGAV, ITGB3 and CYCLO (RGDFK) complex, conformation 1
Dual receptor-binding, infectivity, and transmissibility of an emerging H2N2 avian influenza virus
Immune complex of W328-6H2 Fab binding the RBD of Omicron BA.1 6p spike protein added BS3 crosslinker
Cryo-EM structure of Mycobacterium tuberculosis transcription activation complex with six PhoP molecules
Structure of interleukin receptor common gamma chain (IL2Rgamma/CD132) in complex with 2D4
Glucose-6-phosphate dehydrogenase (G6PDH) from Synechocystis sp. PCC 6803
Cryo-EM structure of IrtAB in outward-occluded state in nanodisc in complex with ADP-vanadate
RyR1 in detergent in close state in complex with nanobody and FKBP12
Structure of the human two pore domain potassium ion channel TASK-1 (K2P3.1)
Structure of the human two pore domain potassium ion channel TASK-3 (K2P9.1) G236R mutant
Cryo-EM structure of IrtAB in outward-occluded state in presence of mycobactin under turnover conditions in LMNG
Cryo-EM structure of IrtAB in outward-occluded state in LMNG in complex with ADP-vanadate
Structure of the FDX2-bound core ISC complex (consensus refinement)
Structure of the human two pore domain potassium ion channel TASK-3 (K2P9.1)
Cryo-EM structure of IrtAB in inward-facing state in presence of mycobactin under turnover conditions in LMNG
RyR1 reconstituted into liposome in open state in complex with nanobody and FKBP12
Structure of the core ISC complex under turnover conditions (FDX2-bound in distal conformation)
Cryo-EM structure of human CD163 SRCR2-4 in complex with haptoglobin-hemoglobin
Structure of the core ISC complex under turnover conditions (frataxin-bound)
Structure of the core ISC complex under turnover conditions (consensus refinement)
Cryo-EM structure of IrtAB 3xHtoA mutant in outward-occluded state in presence of mycobactin under turnover conditions in LMNG
Cryo-EM structure of IrtAB in outward-occluded state under turnover conditions
Cryo-EM structure of IrtAB 3xHtoA mutant in inward-facing state in presence of mycobactin under turnover conditions in LMNG
Cryo-EM structure of IrtAB 2xEQ mutant in outward-occluded state in nanodisc
Ribosome-associated vesicle attached to a microtubule found in the thin edge of an U2OS cell.