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Current Database

  • EMDB [25229]

Current status

  • REL [25229]

Sample type

  • Protein [24883]
  • Complex [22816]
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  • DNA [2612]
  • Cellular component [1086]
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  • Sample [54]
  • Other [31]

Organism

  • Homo sapiens [10988]
  • Synthetic construct [2207]
  • Mus musculus [1779]
  • Escherichia coli [1490]
  • Severe acute respiratory syndrome coronavirus [1085]
  • Saccharomyces cerevisiae [863]
  • Rattus norvegicus [616]
  • Escherichia coli [575]
  • Lama glama [499]
  • Oryctolagus cuniculus [467]
  • Arabidopsis thaliana [413]
  • Bos taurus [401]
  • Human immunodeficiency virus 1 [395]
  • Saccharomyces cerevisiae [371]
  • Sus scrofa [333]
  • Xenopus laevis [266]
  • Drosophila melanogaster [172]
  • Macaca mulatta [159]
  • Influenza a virus [157]
  • Vicugna pacos [141]
  • Mycobacterium tuberculosis [138]
  • Mycolicibacterium smegmatis [122]
  • Staphylococcus aureus [118]
  • Geobacillus stearothermophilus [115]
  • Gallus gallus [113]
  • Bacillus subtilis [110]
  • Thermus thermophilus [107]
  • Escherichia coli [103]
  • Mycobacterium tuberculosis [102]
  • Pseudomonas aeruginosa [95]
  • Aequorea victoria [88]
  • Danio rerio [86]
  • Enterobacteria phage t4 [83]
  • Pseudomonas aeruginosa [76]
  • Bacillus subtilis [71]
  • Caenorhabditis elegans [70]
  • Chaetomium thermophilum [68]
  • Mycolicibacterium smegmatis [67]
  • Dna molecule [67]
  • Chaetomium thermophilum [63]
  • Streptococcus pyogenes [61]
  • Monkeypox virus [60]
  • Vibrio cholerae [60]
  • Plasmodium falciparum [59]
  • Enterobacteria phage t4 [53]
  • Synechocystis sp. pcc 6803 [51]
  • Enterovirus d [51]
  • Klebsiella pneumoniae [50]
  • Chlamydomonas reinhardtii [49]
  • Amanita phalloides [49]
  • Plasmodium falciparum [48]
  • Escherichia coli [47]
  • Aquifex aeolicus [46]
  • Ovis aries [46]
  • Saccharolobus solfataricus [44]
  • Schizosaccharomyces pombe [43]
  • Clostridioides difficile [42]
  • Oryza sativa [42]
  • Salmonella enterica [42]
  • Human coronavirus hku1 [41]
  • Tetrahymena thermophila [41]
  • African swine fever virus [40]
  • Cricetulus griseus [38]
  • Adeno-associated virus [38]
  • Mycoplasma pneumoniae [37]
  • Severe acute respiratory syndrome coronavirus [36]
  • Salmonella enterica [36]
  • Middle east respiratory syndrome-related coronavirus [35]
  • Enterovirus a [35]
  • Nipah virus [33]
  • Dengue virus [32]
  • Bacillus sp. (strain ps3) [32]
  • Azotobacter vinelandii [32]
  • Spodoptera frugiperda [32]
  • (no species) [31]
  • Clostridium perfringens [31]
  • Strongylocentrotus purpuratus [31]
  • Canis lupus [31]
  • Escherichia phage lambda [30]
  • Hepatitis b virus [29]
  • Acetivibrio thermocellus [29]
  • Pyrococcus furiosus [29]
  • Acinetobacter baumannii [29]
  • Thermococcus profundus [29]
  • Escherichia coli [29]
  • Human cytomegalovirus [28]
  • Candida albicans [28]
  • Escherichia virus t7 [27]
  • Azotobacter vinelandii [27]
  • Trypanosoma brucei [27]
  • Escherichia coli [26]
  • Eastern equine encephalitis virus [25]
  • Thermotoga maritima [25]
  • Thermus thermophilus [25]
  • Chloroflexus aurantiacus [25]
  • Schizosaccharomyces pombe [25]
  • Yarrowia lipolytica [25]
  • Caulobacter vibrioides [25]
  • (no species) [24]
  • Human herpesvirus 1 [24]

EM Method

  • Single-particle [23622]
  • Helical reconstruction [1419]
  • Subtomogram averaging [173]
  • Electron Crystallography [11]
  • Tomography [4]

Resolution

  • < 2Å [263]
  • ≥ 2Å and < 3Å [8240]
  • ≥ 3Å and < 4Å [13491]
  • ≥ 4Å and < 5Å [2091]
  • ≥ 5Å and < 6Å [325]
  • ≥ 6Å and < 8Å [497]
  • ≥ 8Å and < 12Å [225]
  • ≥ 12Å and < 16Å [38]
  • ≥ 16Å and < 20Å [27]
  • ≥ 20Å and < 30Å [16]
  • ≥ 30Å [13]

Model molecular weight

  • 0-50 kDa [497]
  • 50-100 kDa [1828]
  • 100-250 kDa [7914]
  • 250-500 kDa [5964]
  • 500-1000 kDa [3079]
  • 1-2 MDa [1311]
  • 2-5 MDa [1486]
  • 5-10 MDa [337]
  • > 10 MDa [149]

Release Date

  • 2026 [5202]
  • 2025 [6881]
  • 2024 [4375]
  • 2023 [3430]
  • 2022 [2462]
  • 2021 [1202]
  • 2020 [762]
  • 2019 [382]
  • 2018 [270]
  • 2017 [114]
  • 2016 [96]
  • 2015 [3]
  • 2014 [3]
  • 2013 [1]
  • 2012 [2]
  • 2011 [2]
  • 2010 [17]
  • 2009 [6]
  • 2006 [7]
  • 2005 [4]
  • 2004 [2]
  • 2003 [5]
  • 2002 [1]

Author by name

  • Zhang Y [975]
  • Wang Y [890]
  • Li Y [803]
  • Wang X [764]
  • Wang J [749]
  • Liu Y [693]
  • Zhang X [679]
  • Li X [665]
  • Li Z [561]
  • Zhang Z [526]
  • Li J [515]
  • Wang L [500]
  • Li S [474]
  • Chen X [469]
  • Zhang J [460]
  • Liu J [456]
  • Li H [440]
  • Chen Y [435]
  • Gao Y [412]
  • Liu Z [402]
  • Zhang H [402]
  • Zhang L [393]
  • Wang Q [391]
  • Li D [384]
  • Liu S [382]
  • Liu L [375]
  • Liu C [368]
  • Ward AB [364]
  • Zhang S [355]
  • Liu X [348]
  • Wang C [342]
  • Xu Y [340]
  • Zhang K [340]
  • Wang H [330]
  • Chen J [327]
  • Wang S [318]
  • Yang Y [315]
  • Liu H [302]
  • Zhao Y [297]
  • Shi Y [295]
  • Liu B [281]
  • Chen Z [273]
  • Wang Z [268]
  • Zhu Y [268]
  • Zhao J [264]
  • Yang X [262]
  • Zhang W [256]
  • Zhang B [255]
  • Jiang Y [249]
  • Wang W [248]
  • Huang Y [245]
  • Wang M [244]
  • Li M [243]
  • Xu HE [243]
  • Huang J [241]
  • Chen L [235]
  • Zhang C [234]
  • Chen H [233]
  • Nureki O [233]
  • Li W [231]
  • Wang P [230]
  • Zhang M [229]
  • Yang J [217]
  • He J [215]
  • Yu X [213]
  • Xu J [211]
  • Zhou J [208]
  • Kwong PD [207]
  • Yang H [207]
  • Yang F [204]
  • Zhao X [204]
  • Yuan Q [203]
  • Chen Q [201]
  • Wu Y [201]
  • Wang F [198]
  • Wu C [197]
  • Zhang Q [197]
  • Cheng J [196]
  • Li L [196]
  • Sun L [196]
  • Sun J [195]
  • Li F [194]
  • Xu C [191]
  • Zhou Y [191]
  • Rao Z [189]
  • Zhang P [187]
  • Wang D [186]
  • Lu Y [183]
  • Yu Y [183]
  • Cheng Y [181]
  • Huang X [181]
  • Yang Z [177]
  • Guo Y [174]
  • Li Q [170]
  • Xie Y [170]
  • Gao GF [166]
  • Sun Y [165]
  • Liu K [163]
  • Cramer P [160]
  • Du J [160]

Author by ORCID

  • Ward AB [212]
  • Kwong PD [159]
  • Xu HE [151]
  • Nureki O [139]
  • Kotecha A [134]
  • Cheng Y [132]
  • Yamashita K [119]
  • Gao GF [114]
  • Zhang K [109]
  • Raunser S [107]
  • Xiong X [104]
  • Chai P [101]
  • Cottrell CA [99]
  • Crispin M [98]
  • Scheres SHW [96]
  • Rubinstein JL [94]
  • Zhang P [93]
  • Aricescu AR [87]
  • Rao Z [83]
  • Lee SY [83]
  • Kobilka BK [82]
  • Beckmann R [81]
  • Fuzik T [80]
  • Cusack S [80]
  • Lu W [79]
  • Allen JD [79]
  • Novacek J [79]
  • Plevka P [79]
  • Degenhardt MFS [79]
  • He X [78]
  • Baker D [78]
  • Goedert M [78]
  • Sun JP [78]
  • Wilson DN [78]
  • Zhang K [77]
  • Du J [77]
  • Stagno J [76]
  • Hardwick SW [74]
  • Stahlberg H [74]
  • Qi J [74]
  • Korostelev AA [74]
  • Wang YX [73]
  • Torres JL [73]
  • Kouba T [72]
  • Malinauskas T [71]
  • Corti D [71]
  • Kishikawa JI [71]
  • Venugopal H [70]
  • Demo G [70]
  • Yang D [70]
  • Mclellan JS [70]
  • Borgnia MJ [69]
  • Gorman J [69]
  • Lopez-alonso JP [69]
  • Zhao Y [68]
  • He J [68]
  • Cramer P [67]
  • Furukawa H [67]
  • Zhou ZH [67]
  • Skiniotis G [67]
  • Xu Y [66]
  • Yang J [66]
  • Lea SM [66]
  • King NP [66]
  • Gao N [66]
  • Wootten D [66]
  • Li H [65]
  • Chirgadze DY [65]
  • Ranson NA [65]
  • Copps J [65]
  • Gil-carton D [64]
  • Zhao J [64]
  • Steyaert J [63]
  • Veesler D [63]
  • Yokoyama K [63]
  • Huiskonen JT [61]
  • Zhou T [61]
  • Kusakizako T [61]
  • Kato T [61]
  • Belousoff MJ [60]
  • Liu B [60]
  • Chen L [60]
  • Kossiakoff AA [60]
  • Lander GC [60]
  • Ando N [59]
  • Inoue A [59]
  • Kurumizaka H [58]
  • Rosenthal PB [58]
  • Dutzler R [58]
  • Leschziner AE [58]
  • Sano FK [58]
  • Liu J [58]
  • Rappsilber J [57]
  • Sun L [57]
  • Spahn CMT [57]
  • Subramaniam S [57]
  • Cheng J [57]
  • Wang MW [56]
  • Chen X [56]
  • Shirouzu M [56]

Journal

  • NAT COMMUN [5410]
  • TO BE PUBLISHED [3167]
  • NATURE [1892]
  • NAT STRUCT MOL BIOL [1409]
  • BIORXIV [1358]
  • PNAS [1330]
  • SCI ADV [1009]
  • CELL [813]
  • SCIENCE [795]
  • MOL CELL [765]
  • NUCLEIC ACIDS RES [621]
  • STRUCTURE [564]
  • ELIFE [543]
  • CELL REP [487]
  • COMMUN BIOL [372]
  • EMBO J [343]
  • CELL RES [335]
  • NAT CHEM BIOL [299]
  • CELL DISCOV [279]
  • J BIOL CHEM [232]
  • ACTA CRYSTALLOGR D STRUCT BIOL [228]
  • PLOS PATHOG [183]
  • J MOL BIOL [179]
  • NAT MICROBIOL [138]
  • PROTEIN SCI [135]
  • J VIROL [130]
  • J AM CHEM SOC [119]
  • PLOS BIOL [88]
  • MBIO [87]
  • NAT PLANTS [85]
  • IMMUNITY [82]
  • CELL HOST MICROBE [74]
  • J MED CHEM [74]
  • NEURON [70]
  • PROTEIN CELL [69]
  • SCI REP [68]
  • LIFE SCI ALLIANCE [60]
  • ADV SCI [59]
  • ISCIENCE [59]
  • J STRUCT BIOL [59]
  • RES SQ [54]
  • VIRUSES [52]
  • NAT METHODS [51]
  • ACTA NEUROPATHOL [47]
  • EMBO REP [47]
  • IUCRJ [45]
  • NAT CATAL [44]
  • PNAS NEXUS [41]
  • COMMUN CHEM [38]
  • NPJ VACCINES [38]
  • SIGNAL TRANSDUCT TARGET THER [37]
  • BIOCHEM BIOPHYS RES COMMUN [36]
  • INT J BIOL MACROMOL [36]
  • INT J MOL SCI [36]
  • J STRUCT BIOL X [36]
  • SCI TRANSL MED [36]
  • PLANT CELL [34]
  • VITA [33]
  • ANGEW CHEM INT ED ENGL [32]
  • MOL PLANT [32]
  • J CELL BIOL [31]
  • PLOS ONE [31]
  • FEBS J [30]
  • SCI IMMUNOL [27]
  • BLOOD [26]
  • PLANT COMMUN. [26]
  • BIOCHEMISTRY [25]
  • J.MOL.CELL.CARDIOL. [23]
  • NAT NEUROSCI [21]
  • ACTA PHARMACOL.SIN. [20]
  • BIOCHIM BIOPHYS ACTA BIOENERG [20]
  • HLIFE [20]
  • ACS NANO [19]
  • BIOMOLECULES [19]
  • CELL CHEM BIOL [19]
  • FEBS LETT [18]
  • CELL REP MED [17]
  • SCI SIGNAL [17]
  • ACS CATAL [16]
  • BIOCHEM J [16]
  • NAT NANOTECHNOL [16]
  • NATL SCI REV [16]
  • ACS CHEM BIOL [15]
  • DEV CELL [15]
  • J EXP MED [15]
  • ACS INFECT DIS. [14]
  • CURR BIOL [14]
  • J GEN VIROL [14]
  • ACTA PHARM SIN B [13]
  • FUNDAM RES [13]
  • MOL THER METHODS CLIN DEV [13]
  • NAT CHEM [13]
  • RNA [13]
  • SCI BULL (BEIJING) [13]
  • VIROL SIN [13]
  • ACS CENT SCI [12]
  • FRONT IMMUNOL [12]
  • GENES DEV [12]
  • MEDCOMM (2020) [12]
  • MOL THER [12]

Software

  • CRYOSPARC [9399]
  • RELION [5381]
  • CTFFIND [1041]
  • GCTF [517]
  • PHENIX [268]
  • COOT [263]
  • CISTEM [210]
  • UCSF CHIMERAX [206]
  • WARP [165]
  • UCSF CHIMERA [107]
  • FREALIGN [106]
  • SPHIRE [63]
  • CRYOLO [53]
  • DYNAMO [30]
  • ISOLDE [27]
  • JSPR [25]
  • SIMPLE [22]
  • EMAN2 [18]
  • PYTOM [18]
  • SPIDER [18]
  • SUBTOM [17]
  • IMOD [15]
  • TOPAZ [14]
  • EMREADY [13]
  • MATLAB [13]
  • EMAN [12]
  • FOCUS [9]
  • MOTIONCORR2 [8]
  • EMCLARITY [7]
  • EPU [7]
  • XSCALE [7]
  • PHASER [6]
  • SCIPION [6]
  • XDS [6]
  • CCP4 PACKAGE [5]
  • M [5]
  • SERVALCAT [5]
  • SPARX [5]
  • SPRING [5]
  • STOPGAP [5]
  • AUTO3DEM [4]
  • CRYOS [4]
  • IMAGIC [4]
  • REFMAC [4]
  • URO [4]
  • AMIRAMOL 3.0 [3]
  • APPION [3]
  • ARP/WARP [3]
  • CHIMERA [3]
  • DEEPEMHANCER [3]
  • EMAN1 [3]
  • EMFIT [3]
  • FREALIX [3]
  • J3DR [3]
  • JALIGN [3]
  • NOVACTF [3]
  • SERIALEM [3]
  • SITUS [3]
  • CRY [2]
  • CRYOSMART [2]
  • CTFFIND3 [2]
  • CTFFIND3, RELION [2]
  • CTFFIND4 [2]
  • DIREX [2]
  • EM3DR2, PFT2, CTFMIX [2]
  • IHRSR [2]
  • MANUAL [2]
  • MRC, AND, OWN, PROGRAMS [2]
  • NAMD [2]
  • O [2]
  • PFT EM3DR [2]
  • PFT2 AND EM3DR2 [2]
  • RSREF [2]
  • SPIDER, FREALIGN [2]
  • AV3 [1]
  • CNSSOLVE [1]
  • COW [1]
  • CRYO [1]
  • CRYODRGN [1]
  • CRYOSP [1]
  • CRYOSPA [1]
  • CTFFIND4, RELION [1]
  • EMAN, IMAGIC [1]
  • EMAN, XMIPP, SPIDER [1]
  • GAUTOMATCH [1]
  • GROMACS [1]
  • I3 [1]
  • LEGINON [1]
  • MDFF [1]
  • MOLREP [1]
  • MRC [1]
  • MRC IMAGE PROCESSING PACKAGE [1]
  • PARALLELIZED EMPFT, EM3DR [1]
  • PEET [1]
  • PHENIX.REFINE [1]
  • SPDER [1]
  • SPIDER AND IMAGIC [1]
  • SPIDER AND SPARX [1]
  • SPIDER, SPARX [1]
  • TIGRIS, SPIDER, IMAGIC [1]

Microscope

  • FEI TITAN KRIOS [11676]
  • TFS KRIOS [9310]
  • FEI TALOS ARCTICA [1459]
  • TFS GLACIOS [1065]
  • JEOL CRYO ARM 300 [478]
  • FEI POLARA 300 [330]
  • FEI TECNAI F30 [241]
  • FEI TITAN [139]
  • FEI TECNAI ARCTICA [124]
  • TFS TALOS [92]
  • JEOL CRYO ARM 200 [55]
  • FEI MORGAGNI [44]
  • FEI TECNAI F20 [28]
  • FEI TECNAI SPIRIT [28]
  • FEI/PHILIPS CM300FEG/T [26]
  • TFS TITAN THEMIS [26]
  • FEI TECNAI 12 [18]
  • JEOL 3200FSC [17]
  • FEI TECNAI 20 [16]
  • JEOL 1400/HR YPS FEG [11]
  • FEI TECNAI 10 [8]
  • FEI/PHILIPS CM200FEG [7]
  • TFS TALOS F200C [7]
  • FEI/PHILIPS CM300FEG/HE [5]
  • FEI TECNAI SPHERA [4]
  • JEOL 1200EXII [3]
  • JEOL 3000SFF [3]
  • FEI/PHILIPS CM200T [2]
  • JEOL 2100F [2]
  • JEOL 2200FSC [2]
  • JEOL 3200FS [2]
  • SHUIMU TOTEM 300S [2]
  • TFS TALOS L120C [2]
  • TFS TUNDRA [2]
  • FEI/PHILIPS CM10 [1]
  • FEI/PHILIPS CM200FEG/UT [1]
  • FEI/PHILIPS EM400 [1]
  • JEOL 1200 [1]
  • JEOL 1200EX [1]
  • JEOL 4000EX [1]
  • JEOL KYOTO-3000SFF [1]

Electron Source

  • FIELD EMISSION GUN [24966]
  • OTHER [198]
  • LAB6 [50]
  • TUNGSTEN HAIRPIN [15]

Film or detector model

  • GATAN K3 6K X 4K [8405]
  • GATAN K3 BIOQUANTUM 6K X 4K [5972]
  • FEI FALCON IV 4K X 4K [3605]
  • GATAN K2 SUMMIT 4K X 4K [3364]
  • FEI FALCON III 4K X 4K [1210]
  • TFS FALCON 4I 4K X 4K [828]
  • GATAN K2 QUANTUM 4K X 4K [742]
  • GATAN K3 BIOCONTINUUM 6K X 4K [517]
  • FEI FALCON II 4K X 4K [285]
  • GATAN K2 BASE 4K X 4K [83]
  • OTHER [53]
  • KODAK SO-163 FILM [40]
  • FEI FALCON I 4K X 4K [38]
  • DIRECT ELECTRON APOLLO 4K X 4K [26]
  • DIRECT ELECTRON DE-10 5K X 4K [19]
  • GATAN K2 IS 4K X 4K [16]
  • DIRECT ELECTRON DE-64 8K X 8K [14]
  • DECTRIS SINGLA 1K X 1K [11]
  • DIRECT ELECTRON DE-16 4K X 4K [11]
  • FEI EAGLE 4K X 4K [10]
  • DIRECT ELECTRON DE-20 5K X 3K [9]
  • FEI CETA 4K X 4K [8]
  • GATAN ULTRASCAN 4000 4K X 4K [5]
  • GATAN K2 4K X 4K [3]
  • GATAN MULTISCAN [3]
  • FEI EAGLE 2K X 2K [2]
  • DECTRIS ARINA 0.2K X 0.2K [1]
  • DIRECT ELECTRON DE-12 4K X 3K [1]
  • GATAN ORIUS SC600 2.7K X 2.7K [1]
  • GENERIC CCD 2K X 2K [1]
  • GENERIC GATAN 4K X 4K [1]
  • TVIPS TEMCAM-F416 4K X 4K [1]

External links

  • PDB [22646]
  • UniProt [21601]
  • PDBe-Kb [19843]
  • AlphaFold DB [19372]
  • InterPro [17759]
  • Gene Ontology [17589]
  • Pfam [16460]
  • ChEBI [13540]
  • ChEMBL [12178]
  • DrugBank [10956]
  • Complex Portal [5922]
  • EMPIAR [2243]
  • SCOP2 [217]
  • CATH [120]
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EMD-47384
Download Map
3D View
Cryo-EM structure of the ribosome-tunnel occluding hibernation factor bound to the Mycobacterium tuberculosis C- 70S ribosome carrying an E-tRNA
CryoEM
Release date: Sept. 2, 2026
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9e16
Q-score: 0.333
Similar entry percentile: 4%

Majumdar S, Li Y, Manjari SR, Gamper HB, Hou YM, Banavali NK, Ojha AK, Agrawal RK

bioRxiv (2024) [ DOI: doi:10.1101/2024.11.25.625233 ]

EMD-47419
Download Map
3D View
Cryo-EM structure of the ribosome-tunnel occluding hibernation factor bound to the Mycobacterium tuberculosis C- 50S ribosomal subunit
CryoEM
Release date: Sept. 2, 2026
Resolution: 2.39 Å
EM Method: Single-particle
Fitted PDBs: 9e1s
Q-score: 0.333
Similar entry percentile: 2%

Majumdar S, Li Y, Manjari SR, Gamper HB, Hou YM, Banavali NK, Ojha AK, Agrawal RK

bioRxiv (2024) [ DOI: doi:10.1101/2024.11.25.625233 ]

EMD-47876
Download Map
3D View
Cryo-EM structure of the MPY and ribosome-tunnel occluding hibernation factors bound to the Mycobacterium tuberculosis C- 70S ribosome
CryoEM
Release date: Sept. 2, 2026
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9ebb
Q-score: 0.512
Similar entry percentile: 43%

Majumdar S, Li Y, Manjari SR, Gamper HB, Hou YM, Banavali NK, Ojha AK, Agrawal RK

bioRxiv (2024) [ DOI: doi:10.1101/2024.11.25.625233 ]

EMD-47899
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3D View
Cryo-EM structure of the ribosome-tunnel occluding hibernation factor bound to the Mycobacterium tuberculosis C- 70S ribosome carrying fMet-tRNA fMet and deacylated tRNA at ribosome P and E sites.
CryoEM
Release date: Sept. 2, 2026
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 9ec3
Q-score: 0.461
Similar entry percentile: 48%

Majumdar S, Li Y, Manjari SR, Gamper HB, Hou YM, Banavali NK, Ojha AK, Agrawal RK

bioRxiv (2024) [ DOI: doi:10.1101/2024.11.25.625233 ]

EMD-49433
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The cryo-EM structure of the periplasmic chaperone Skp from Neisseria meningitidis
CryoEM
Release date: Sept. 2, 2026
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 9nhx
Q-score: 0.164
Similar entry percentile: 9%

Dubey S, Noinaj N

To Be Published

EMD-49747
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3D View
MPXV replisome bound to ssDNA
CryoEM
Release date: Sept. 2, 2026
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 9nsp
Q-score: 0.152
Similar entry percentile: 4%

Yu Z, Sathyanarayana P, Tan JMJT, Hu S, Fan X, Gao A, Kranzusch PJ, Loparo JJ, Abraham J

Nature (2026) [ DOI: doi:10.1038/s41586-026-10937-2 ]

EMD-52843
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Cryo-EM structure of the kinetoplastid trans-spliceosome activated for catalytic step II C complex
Composite map
CryoEM
Release date: Sept. 2, 2026
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9if7
Q-score: 0.458
Similar entry percentile: 21%

Nadenoen T, Vanden Broeck A

To Be Published

EMD-52844
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3D View
Cryo-EM structure of the kinetoplastid post-catalytic trans-spliceosome P complex
Composite map
CryoEM
Release date: Sept. 2, 2026
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 9if8
Q-score: 0.422
Similar entry percentile: 15%

Nadenoen T, Vanden Broeck A

To Be Published

EMD-52854
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3D View
Mouse teneurin-3 A1B1 isoform; microphthalmia-associated R2579W mutant; compact dimer conformation
CryoEM
Release date: Sept. 2, 2026
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9igs
Q-score: 0.495
Similar entry percentile: 52%

Gogou C, Meijer DH

To Be Published

EMD-52874
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3D View
Cryo-EM structure of NLRP3 bound to the inhibitor BAL-1516 at 3.06 Ang resolution
CryoEM
Release date: Sept. 2, 2026
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 9ihn
Q-score: 0.443
Similar entry percentile: 29%

Torp J, Geyer M

To Be Published

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Filter By

Current Database

  • EMDB [25229]

Current status

  • REL [25229]

Sample type

  • Protein [24883]
  • Complex [22816]
  • Ligand [16822]
  • RNA [3691]
  • DNA [2612]
  • Cellular component [1086]
  • Virus [1000]
  • Cell [297]
  • Tissue [190]
  • Sample [54]
  • Other [31]

Organism

  • Homo sapiens [10988]
  • Synthetic construct [2207]
  • Mus musculus [1779]
  • Escherichia coli [1490]
  • Severe acute respiratory syndrome coronavirus [1085]
  • Saccharomyces cerevisiae [863]
  • Rattus norvegicus [616]
  • Escherichia coli [575]
  • Lama glama [499]
  • Oryctolagus cuniculus [467]
  • Arabidopsis thaliana [413]
  • Bos taurus [401]
  • Human immunodeficiency virus 1 [395]
  • Saccharomyces cerevisiae [371]
  • Sus scrofa [333]
  • Xenopus laevis [266]
  • Drosophila melanogaster [172]
  • Macaca mulatta [159]
  • Influenza a virus [157]
  • Vicugna pacos [141]
  • Mycobacterium tuberculosis [138]
  • Mycolicibacterium smegmatis [122]
  • Staphylococcus aureus [118]
  • Geobacillus stearothermophilus [115]
  • Gallus gallus [113]
  • Bacillus subtilis [110]
  • Thermus thermophilus [107]
  • Escherichia coli [103]
  • Mycobacterium tuberculosis [102]
  • Pseudomonas aeruginosa [95]
  • Aequorea victoria [88]
  • Danio rerio [86]
  • Enterobacteria phage t4 [83]
  • Pseudomonas aeruginosa [76]
  • Bacillus subtilis [71]
  • Caenorhabditis elegans [70]
  • Chaetomium thermophilum [68]
  • Mycolicibacterium smegmatis [67]
  • Dna molecule [67]
  • Chaetomium thermophilum [63]
  • Streptococcus pyogenes [61]
  • Monkeypox virus [60]
  • Vibrio cholerae [60]
  • Plasmodium falciparum [59]
  • Enterobacteria phage t4 [53]
  • Synechocystis sp. pcc 6803 [51]
  • Enterovirus d [51]
  • Klebsiella pneumoniae [50]
  • Chlamydomonas reinhardtii [49]
  • Amanita phalloides [49]
  • Plasmodium falciparum [48]
  • Escherichia coli [47]
  • Aquifex aeolicus [46]
  • Ovis aries [46]
  • Saccharolobus solfataricus [44]
  • Schizosaccharomyces pombe [43]
  • Clostridioides difficile [42]
  • Oryza sativa [42]
  • Salmonella enterica [42]
  • Human coronavirus hku1 [41]
  • Tetrahymena thermophila [41]
  • African swine fever virus [40]
  • Cricetulus griseus [38]
  • Adeno-associated virus [38]
  • Mycoplasma pneumoniae [37]
  • Severe acute respiratory syndrome coronavirus [36]
  • Salmonella enterica [36]
  • Middle east respiratory syndrome-related coronavirus [35]
  • Enterovirus a [35]
  • Nipah virus [33]
  • Dengue virus [32]
  • Bacillus sp. (strain ps3) [32]
  • Azotobacter vinelandii [32]
  • Spodoptera frugiperda [32]
  • (no species) [31]
  • Clostridium perfringens [31]
  • Strongylocentrotus purpuratus [31]
  • Canis lupus [31]
  • Escherichia phage lambda [30]
  • Hepatitis b virus [29]
  • Acetivibrio thermocellus [29]
  • Pyrococcus furiosus [29]
  • Acinetobacter baumannii [29]
  • Thermococcus profundus [29]
  • Escherichia coli [29]
  • Human cytomegalovirus [28]
  • Candida albicans [28]
  • Escherichia virus t7 [27]
  • Azotobacter vinelandii [27]
  • Trypanosoma brucei [27]
  • Escherichia coli [26]
  • Eastern equine encephalitis virus [25]
  • Thermotoga maritima [25]
  • Thermus thermophilus [25]
  • Chloroflexus aurantiacus [25]
  • Schizosaccharomyces pombe [25]
  • Yarrowia lipolytica [25]
  • Caulobacter vibrioides [25]
  • (no species) [24]
  • Human herpesvirus 1 [24]

EM Method

  • Single-particle [23622]
  • Helical reconstruction [1419]
  • Subtomogram averaging [173]
  • Electron Crystallography [11]
  • Tomography [4]

Resolution

  • < 2Å [263]
  • ≥ 2Å and < 3Å [8240]
  • ≥ 3Å and < 4Å [13491]
  • ≥ 4Å and < 5Å [2091]
  • ≥ 5Å and < 6Å [325]
  • ≥ 6Å and < 8Å [497]
  • ≥ 8Å and < 12Å [225]
  • ≥ 12Å and < 16Å [38]
  • ≥ 16Å and < 20Å [27]
  • ≥ 20Å and < 30Å [16]
  • ≥ 30Å [13]

Model molecular weight

  • 0-50 kDa [497]
  • 50-100 kDa [1828]
  • 100-250 kDa [7914]
  • 250-500 kDa [5964]
  • 500-1000 kDa [3079]
  • 1-2 MDa [1311]
  • 2-5 MDa [1486]
  • 5-10 MDa [337]
  • > 10 MDa [149]

Release Date

  • 2026 [5202]
  • 2025 [6881]
  • 2024 [4375]
  • 2023 [3430]
  • 2022 [2462]
  • 2021 [1202]
  • 2020 [762]
  • 2019 [382]
  • 2018 [270]
  • 2017 [114]
  • 2016 [96]
  • 2015 [3]
  • 2014 [3]
  • 2013 [1]
  • 2012 [2]
  • 2011 [2]
  • 2010 [17]
  • 2009 [6]
  • 2006 [7]
  • 2005 [4]
  • 2004 [2]
  • 2003 [5]
  • 2002 [1]

Author by name

  • Zhang Y [975]
  • Wang Y [890]
  • Li Y [803]
  • Wang X [764]
  • Wang J [749]
  • Liu Y [693]
  • Zhang X [679]
  • Li X [665]
  • Li Z [561]
  • Zhang Z [526]
  • Li J [515]
  • Wang L [500]
  • Li S [474]
  • Chen X [469]
  • Zhang J [460]
  • Liu J [456]
  • Li H [440]
  • Chen Y [435]
  • Gao Y [412]
  • Liu Z [402]
  • Zhang H [402]
  • Zhang L [393]
  • Wang Q [391]
  • Li D [384]
  • Liu S [382]
  • Liu L [375]
  • Liu C [368]
  • Ward AB [364]
  • Zhang S [355]
  • Liu X [348]
  • Wang C [342]
  • Xu Y [340]
  • Zhang K [340]
  • Wang H [330]
  • Chen J [327]
  • Wang S [318]
  • Yang Y [315]
  • Liu H [302]
  • Zhao Y [297]
  • Shi Y [295]
  • Liu B [281]
  • Chen Z [273]
  • Wang Z [268]
  • Zhu Y [268]
  • Zhao J [264]
  • Yang X [262]
  • Zhang W [256]
  • Zhang B [255]
  • Jiang Y [249]
  • Wang W [248]
  • Huang Y [245]
  • Wang M [244]
  • Li M [243]
  • Xu HE [243]
  • Huang J [241]
  • Chen L [235]
  • Zhang C [234]
  • Chen H [233]
  • Nureki O [233]
  • Li W [231]
  • Wang P [230]
  • Zhang M [229]
  • Yang J [217]
  • He J [215]
  • Yu X [213]
  • Xu J [211]
  • Zhou J [208]
  • Kwong PD [207]
  • Yang H [207]
  • Yang F [204]
  • Zhao X [204]
  • Yuan Q [203]
  • Chen Q [201]
  • Wu Y [201]
  • Wang F [198]
  • Wu C [197]
  • Zhang Q [197]
  • Cheng J [196]
  • Li L [196]
  • Sun L [196]
  • Sun J [195]
  • Li F [194]
  • Xu C [191]
  • Zhou Y [191]
  • Rao Z [189]
  • Zhang P [187]
  • Wang D [186]
  • Lu Y [183]
  • Yu Y [183]
  • Cheng Y [181]
  • Huang X [181]
  • Yang Z [177]
  • Guo Y [174]
  • Li Q [170]
  • Xie Y [170]
  • Gao GF [166]
  • Sun Y [165]
  • Liu K [163]
  • Cramer P [160]
  • Du J [160]

Author by ORCID

  • Ward AB [212]
  • Kwong PD [159]
  • Xu HE [151]
  • Nureki O [139]
  • Kotecha A [134]
  • Cheng Y [132]
  • Yamashita K [119]
  • Gao GF [114]
  • Zhang K [109]
  • Raunser S [107]
  • Xiong X [104]
  • Chai P [101]
  • Cottrell CA [99]
  • Crispin M [98]
  • Scheres SHW [96]
  • Rubinstein JL [94]
  • Zhang P [93]
  • Aricescu AR [87]
  • Rao Z [83]
  • Lee SY [83]
  • Kobilka BK [82]
  • Beckmann R [81]
  • Fuzik T [80]
  • Cusack S [80]
  • Lu W [79]
  • Allen JD [79]
  • Novacek J [79]
  • Plevka P [79]
  • Degenhardt MFS [79]
  • He X [78]
  • Baker D [78]
  • Goedert M [78]
  • Sun JP [78]
  • Wilson DN [78]
  • Zhang K [77]
  • Du J [77]
  • Stagno J [76]
  • Hardwick SW [74]
  • Stahlberg H [74]
  • Qi J [74]
  • Korostelev AA [74]
  • Wang YX [73]
  • Torres JL [73]
  • Kouba T [72]
  • Malinauskas T [71]
  • Corti D [71]
  • Kishikawa JI [71]
  • Venugopal H [70]
  • Demo G [70]
  • Yang D [70]
  • Mclellan JS [70]
  • Borgnia MJ [69]
  • Gorman J [69]
  • Lopez-alonso JP [69]
  • Zhao Y [68]
  • He J [68]
  • Cramer P [67]
  • Furukawa H [67]
  • Zhou ZH [67]
  • Skiniotis G [67]
  • Xu Y [66]
  • Yang J [66]
  • Lea SM [66]
  • King NP [66]
  • Gao N [66]
  • Wootten D [66]
  • Li H [65]
  • Chirgadze DY [65]
  • Ranson NA [65]
  • Copps J [65]
  • Gil-carton D [64]
  • Zhao J [64]
  • Steyaert J [63]
  • Veesler D [63]
  • Yokoyama K [63]
  • Huiskonen JT [61]
  • Zhou T [61]
  • Kusakizako T [61]
  • Kato T [61]
  • Belousoff MJ [60]
  • Liu B [60]
  • Chen L [60]
  • Kossiakoff AA [60]
  • Lander GC [60]
  • Ando N [59]
  • Inoue A [59]
  • Kurumizaka H [58]
  • Rosenthal PB [58]
  • Dutzler R [58]
  • Leschziner AE [58]
  • Sano FK [58]
  • Liu J [58]
  • Rappsilber J [57]
  • Sun L [57]
  • Spahn CMT [57]
  • Subramaniam S [57]
  • Cheng J [57]
  • Wang MW [56]
  • Chen X [56]
  • Shirouzu M [56]

Journal

  • NAT COMMUN [5410]
  • TO BE PUBLISHED [3167]
  • NATURE [1892]
  • NAT STRUCT MOL BIOL [1409]
  • BIORXIV [1358]
  • PNAS [1330]
  • SCI ADV [1009]
  • CELL [813]
  • SCIENCE [795]
  • MOL CELL [765]
  • NUCLEIC ACIDS RES [621]
  • STRUCTURE [564]
  • ELIFE [543]
  • CELL REP [487]
  • COMMUN BIOL [372]
  • EMBO J [343]
  • CELL RES [335]
  • NAT CHEM BIOL [299]
  • CELL DISCOV [279]
  • J BIOL CHEM [232]
  • ACTA CRYSTALLOGR D STRUCT BIOL [228]
  • PLOS PATHOG [183]
  • J MOL BIOL [179]
  • NAT MICROBIOL [138]
  • PROTEIN SCI [135]
  • J VIROL [130]
  • J AM CHEM SOC [119]
  • PLOS BIOL [88]
  • MBIO [87]
  • NAT PLANTS [85]
  • IMMUNITY [82]
  • CELL HOST MICROBE [74]
  • J MED CHEM [74]
  • NEURON [70]
  • PROTEIN CELL [69]
  • SCI REP [68]
  • LIFE SCI ALLIANCE [60]
  • ADV SCI [59]
  • ISCIENCE [59]
  • J STRUCT BIOL [59]
  • RES SQ [54]
  • VIRUSES [52]
  • NAT METHODS [51]
  • ACTA NEUROPATHOL [47]
  • EMBO REP [47]
  • IUCRJ [45]
  • NAT CATAL [44]
  • PNAS NEXUS [41]
  • COMMUN CHEM [38]
  • NPJ VACCINES [38]
  • SIGNAL TRANSDUCT TARGET THER [37]
  • BIOCHEM BIOPHYS RES COMMUN [36]
  • INT J BIOL MACROMOL [36]
  • INT J MOL SCI [36]
  • J STRUCT BIOL X [36]
  • SCI TRANSL MED [36]
  • PLANT CELL [34]
  • VITA [33]
  • ANGEW CHEM INT ED ENGL [32]
  • MOL PLANT [32]
  • J CELL BIOL [31]
  • PLOS ONE [31]
  • FEBS J [30]
  • SCI IMMUNOL [27]
  • BLOOD [26]
  • PLANT COMMUN. [26]
  • BIOCHEMISTRY [25]
  • J.MOL.CELL.CARDIOL. [23]
  • NAT NEUROSCI [21]
  • ACTA PHARMACOL.SIN. [20]
  • BIOCHIM BIOPHYS ACTA BIOENERG [20]
  • HLIFE [20]
  • ACS NANO [19]
  • BIOMOLECULES [19]
  • CELL CHEM BIOL [19]
  • FEBS LETT [18]
  • CELL REP MED [17]
  • SCI SIGNAL [17]
  • ACS CATAL [16]
  • BIOCHEM J [16]
  • NAT NANOTECHNOL [16]
  • NATL SCI REV [16]
  • ACS CHEM BIOL [15]
  • DEV CELL [15]
  • J EXP MED [15]
  • ACS INFECT DIS. [14]
  • CURR BIOL [14]
  • J GEN VIROL [14]
  • ACTA PHARM SIN B [13]
  • FUNDAM RES [13]
  • MOL THER METHODS CLIN DEV [13]
  • NAT CHEM [13]
  • RNA [13]
  • SCI BULL (BEIJING) [13]
  • VIROL SIN [13]
  • ACS CENT SCI [12]
  • FRONT IMMUNOL [12]
  • GENES DEV [12]
  • MEDCOMM (2020) [12]
  • MOL THER [12]

Software

  • CRYOSPARC [9399]
  • RELION [5381]
  • CTFFIND [1041]
  • GCTF [517]
  • PHENIX [268]
  • COOT [263]
  • CISTEM [210]
  • UCSF CHIMERAX [206]
  • WARP [165]
  • UCSF CHIMERA [107]
  • FREALIGN [106]
  • SPHIRE [63]
  • CRYOLO [53]
  • DYNAMO [30]
  • ISOLDE [27]
  • JSPR [25]
  • SIMPLE [22]
  • EMAN2 [18]
  • PYTOM [18]
  • SPIDER [18]
  • SUBTOM [17]
  • IMOD [15]
  • TOPAZ [14]
  • EMREADY [13]
  • MATLAB [13]
  • EMAN [12]
  • FOCUS [9]
  • MOTIONCORR2 [8]
  • EMCLARITY [7]
  • EPU [7]
  • XSCALE [7]
  • PHASER [6]
  • SCIPION [6]
  • XDS [6]
  • CCP4 PACKAGE [5]
  • M [5]
  • SERVALCAT [5]
  • SPARX [5]
  • SPRING [5]
  • STOPGAP [5]
  • AUTO3DEM [4]
  • CRYOS [4]
  • IMAGIC [4]
  • REFMAC [4]
  • URO [4]
  • AMIRAMOL 3.0 [3]
  • APPION [3]
  • ARP/WARP [3]
  • CHIMERA [3]
  • DEEPEMHANCER [3]
  • EMAN1 [3]
  • EMFIT [3]
  • FREALIX [3]
  • J3DR [3]
  • JALIGN [3]
  • NOVACTF [3]
  • SERIALEM [3]
  • SITUS [3]
  • CRY [2]
  • CRYOSMART [2]
  • CTFFIND3 [2]
  • CTFFIND3, RELION [2]
  • CTFFIND4 [2]
  • DIREX [2]
  • EM3DR2, PFT2, CTFMIX [2]
  • IHRSR [2]
  • MANUAL [2]
  • MRC, AND, OWN, PROGRAMS [2]
  • NAMD [2]
  • O [2]
  • PFT EM3DR [2]
  • PFT2 AND EM3DR2 [2]
  • RSREF [2]
  • SPIDER, FREALIGN [2]
  • AV3 [1]
  • CNSSOLVE [1]
  • COW [1]
  • CRYO [1]
  • CRYODRGN [1]
  • CRYOSP [1]
  • CRYOSPA [1]
  • CTFFIND4, RELION [1]
  • EMAN, IMAGIC [1]
  • EMAN, XMIPP, SPIDER [1]
  • GAUTOMATCH [1]
  • GROMACS [1]
  • I3 [1]
  • LEGINON [1]
  • MDFF [1]
  • MOLREP [1]
  • MRC [1]
  • MRC IMAGE PROCESSING PACKAGE [1]
  • PARALLELIZED EMPFT, EM3DR [1]
  • PEET [1]
  • PHENIX.REFINE [1]
  • SPDER [1]
  • SPIDER AND IMAGIC [1]
  • SPIDER AND SPARX [1]
  • SPIDER, SPARX [1]
  • TIGRIS, SPIDER, IMAGIC [1]

Microscope

  • FEI TITAN KRIOS [11676]
  • TFS KRIOS [9310]
  • FEI TALOS ARCTICA [1459]
  • TFS GLACIOS [1065]
  • JEOL CRYO ARM 300 [478]
  • FEI POLARA 300 [330]
  • FEI TECNAI F30 [241]
  • FEI TITAN [139]
  • FEI TECNAI ARCTICA [124]
  • TFS TALOS [92]
  • JEOL CRYO ARM 200 [55]
  • FEI MORGAGNI [44]
  • FEI TECNAI F20 [28]
  • FEI TECNAI SPIRIT [28]
  • FEI/PHILIPS CM300FEG/T [26]
  • TFS TITAN THEMIS [26]
  • FEI TECNAI 12 [18]
  • JEOL 3200FSC [17]
  • FEI TECNAI 20 [16]
  • JEOL 1400/HR YPS FEG [11]
  • FEI TECNAI 10 [8]
  • FEI/PHILIPS CM200FEG [7]
  • TFS TALOS F200C [7]
  • FEI/PHILIPS CM300FEG/HE [5]
  • FEI TECNAI SPHERA [4]
  • JEOL 1200EXII [3]
  • JEOL 3000SFF [3]
  • FEI/PHILIPS CM200T [2]
  • JEOL 2100F [2]
  • JEOL 2200FSC [2]
  • JEOL 3200FS [2]
  • SHUIMU TOTEM 300S [2]
  • TFS TALOS L120C [2]
  • TFS TUNDRA [2]
  • FEI/PHILIPS CM10 [1]
  • FEI/PHILIPS CM200FEG/UT [1]
  • FEI/PHILIPS EM400 [1]
  • JEOL 1200 [1]
  • JEOL 1200EX [1]
  • JEOL 4000EX [1]
  • JEOL KYOTO-3000SFF [1]

Electron Source

  • FIELD EMISSION GUN [24966]
  • OTHER [198]
  • LAB6 [50]
  • TUNGSTEN HAIRPIN [15]

Film or detector model

  • GATAN K3 6K X 4K [8405]
  • GATAN K3 BIOQUANTUM 6K X 4K [5972]
  • FEI FALCON IV 4K X 4K [3605]
  • GATAN K2 SUMMIT 4K X 4K [3364]
  • FEI FALCON III 4K X 4K [1210]
  • TFS FALCON 4I 4K X 4K [828]
  • GATAN K2 QUANTUM 4K X 4K [742]
  • GATAN K3 BIOCONTINUUM 6K X 4K [517]
  • FEI FALCON II 4K X 4K [285]
  • GATAN K2 BASE 4K X 4K [83]
  • OTHER [53]
  • KODAK SO-163 FILM [40]
  • FEI FALCON I 4K X 4K [38]
  • DIRECT ELECTRON APOLLO 4K X 4K [26]
  • DIRECT ELECTRON DE-10 5K X 4K [19]
  • GATAN K2 IS 4K X 4K [16]
  • DIRECT ELECTRON DE-64 8K X 8K [14]
  • DECTRIS SINGLA 1K X 1K [11]
  • DIRECT ELECTRON DE-16 4K X 4K [11]
  • FEI EAGLE 4K X 4K [10]
  • DIRECT ELECTRON DE-20 5K X 3K [9]
  • FEI CETA 4K X 4K [8]
  • GATAN ULTRASCAN 4000 4K X 4K [5]
  • GATAN K2 4K X 4K [3]
  • GATAN MULTISCAN [3]
  • FEI EAGLE 2K X 2K [2]
  • DECTRIS ARINA 0.2K X 0.2K [1]
  • DIRECT ELECTRON DE-12 4K X 3K [1]
  • GATAN ORIUS SC600 2.7K X 2.7K [1]
  • GENERIC CCD 2K X 2K [1]
  • GENERIC GATAN 4K X 4K [1]
  • TVIPS TEMCAM-F416 4K X 4K [1]

External links

  • PDB [22646]
  • UniProt [21601]
  • PDBe-Kb [19843]
  • AlphaFold DB [19372]
  • InterPro [17759]
  • Gene Ontology [17589]
  • Pfam [16460]
  • ChEBI [13540]
  • ChEMBL [12178]
  • DrugBank [10956]
  • Complex Portal [5922]
  • EMPIAR [2243]
  • SCOP2 [217]
  • CATH [120]