Electron Microscopy Data Bank

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grant_funding_details:"Japan Science and Technology"

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Current Database

Current status

Sample type

Organism

Homo sapiens [266]
Synthetic construct [112]
Escherichia coli [54]
Severe acute respiratory syndrome coronavirus [45]
Orthobornavirus bornaense [30]
Lama glama [29]
Thermococcus profundus [24]
Komagataella phaffii [24]
Mus musculus [20]
Komagataella phaffii [20]
Mycobacterium phage bxb1 [13]
Escherichia coli [13]
Leptospira biflexa [10]
Sus scrofa [10]
Mycolicibacterium smegmatis [8]
Rattus norvegicus [7]
Pseudomonas fluorescens [7]
Komagataella phaffii [7]
Arabidopsis thaliana [6]
Drosophila melanogaster [6]
Pseudomonas putida [5]
Clostridioides difficile [5]
Mus musculoides [5]
Clostridium botulinum [4]
Vicugna pacos [4]
Spinacia oleracea [4]
Saccharomyces cerevisiae [4]
Escherichia coli [4]
Chlorocebus aethiops [4]
Pseudomonas aeruginosa [3]
Thermus thermophilus [3]
Komagataella pastoris [3]
Saccharomyces cerevisiae [3]
Klebsiella pneumoniae [3]
Caenorhabditis elegans [3]
Salmo salar [3]
Leptolyngbya sp. o-77 [2]
Rhodospirillum rubrum [2]
Asaia platycodi [2]
Lloviu cuevavirus [2]
Odinarchaeota archaeon (strain lcb_4) [2]
Thermosynechococcus elongatus [2]
Shewanella putrefaciens [2]
Metagenome [2]
Enterobacteria phage t4 [2]
Thermus thermophilus [2]
Hydrogenophilus thermoluteolus [2]
Chlamydomonas reinhardtii [2]
Thermococcus kodakarensis [2]
(no species) [2]
Rhodomonas lens [2]
Clostridium botulinum [2]
Hydrogenobacter thermophilus [2]
Xenopus laevis [2]
Trachydiscus minutus [1]
Zaire ebolavirus [1]
Desulfitobacterium hafniense [1]
Clostridium beijerinckii [1]
Mycolicibacterium phlei [1]
Zaire ebolavirus [1]
Nitrospirota bacterium [1]
Tissierellia bacterium [1]
Spirochaetota bacterium [1]
Haloarcula marismortui [1]
Shewanella decolorationis [1]
[mycoplasma] mobile [1]
Alkalihalobacillus halodurans [1]
Klebsiella pneumoniae [1]
Ureaplasma parvum [1]
Schizosaccharomyces pombe [1]
Thermosynechococcus vulcanus [1]
Gloeobacter violaceus [1]
Thalassiosira pseudonana [1]
Marburg marburgvirus [1]
Halomonas eurihalina [1]
Schizosaccharomyces pombe [1]
Klebsiella pneumoniae [1]
Tetrahymena thermophila [1]
Linanthus concinnus [1]
6798959 [1]
Thermococcus kodakarensis [1]
Ostreococcus tauri [1]
Heloderma suspectum [1]
Gallus gallus [1]
Giraffa camelopardalis [1]
Oryctolagus cuniculus [1]

EM Method

Resolution

Model molecular weight

Release Date

Author by name

Kurumizaka H [117]
Takizawa Y [88]
Kujirai T [64]
Shirouzu M [64]
Ehara H [55]
Sekine SI [55]
Danev R [52]
Kato T [49]
Sugita Y [48]
Ogasawara M [42]
Namba K [40]
Sexton PM [38]
Wootten D [38]
Sekine S [37]
Sato K [35]
Belousoff MJ [34]
Maenaka K [34]
Kikkawa M [33]
Anraku Y [32]
Kita S [32]
Negishi L [32]
Hashiguchi T [31]
Hirai Y [30]
Horie M [30]
Ito J [30]
Fujita J [27]
Hatazawa S [27]
Suzuki T [27]
Nureki O [26]
Yajima H [26]
Christopoulos A [25]
Hiraizumi M [25]
Tanaka H [25]
Yamashita K [25]
Irie T [24]
Ishiguro K [24]
Liang YL [24]
Nakasako M [24]
Oide M [24]
Wakabayashi T [24]
Fletcher MM [23]
Inoue T [22]
Ito T [22]
Iwasaki K [22]
Makino F [22]
Matsuura Y [22]
Miyazaki N [22]
Nishimasu H [22]
Sasaki J [22]
Anzai I [21]
Kawamoto A [21]
Plianchaisuk A [21]
Tanaka S [21]
Yoshimura K [21]
Yokoyama T [20]
Deguchi S [19]
Fukuhara T [19]
Ikeda T [19]
Matsuno K [19]
Nao N [19]
Nasser H [19]
Oda Y [19]
Sasaki-tabata K [19]
Suzuki R [19]
Takahashi Y [19]
Takayama K [19]
Tamura T [19]
Tsuda M [19]
Uriu K [19]
Wang L [19]
Yoshimatsu K [19]
Johnson RM [18]
Ishizuka-katsura Y [17]
Katsura K [17]
Kobayashi T [17]
Kukimoto-niino M [17]
Oya E [17]
Shigematsu H [17]
Yanagisawa H [17]
Yonemochi M [17]
Kimura K [16]
Kimura KT [16]
Suzuki S [16]
Begum MM [15]
Cao J [15]
Goto SH [15]
Kobayashi Y [15]
Nozawa K [15]
Yamamoto Y [15]
Asakura H [14]
Fujino Y [14]
Kato J [14]
Miyauchi K [14]
Nagamoto T [14]
Nagashima M [14]
Nishizawa T [14]
Sadamasu K [14]
Saito A [14]
Sakaguchi Y [14]
Shimizu R [14]

Author by ORCID

Kurumizaka H [95]
Sekine SI [48]
Ehara H [46]
Takizawa Y [44]
Sugita Y [42]
Shirouzu M [42]
Kujirai T [40]
Danev R [36]
Wootten D [32]
Hirai Y [30]
Horie M [30]
Belousoff MJ [28]
Kato T [28]
Hatazawa S [26]
Namba K [25]
Anraku Y [24]
Fujita J [24]
Kita S [23]
Sexton PM [21]
Kikkawa M [19]
Anzai I [19]
Negishi L [19]
Kawamoto A [19]
Maenaka K [18]
Yokoyama T [17]
Kukimoto-niino M [17]
Plianchaisuk A [17]
Fletcher MM [16]
Hashiguchi T [16]
Kimura KT [16]
Yajima H [16]
Cao J [15]
Christopoulos A [15]
Goto SH [14]
Nozawa K [13]
Iwasaki S [13]
Hay DL [13]
Kotecha A [12]
Gerle C [12]
Kishikawa JI [12]
Takahashi Y [11]
Ishiguro K [11]
Yoshimatsu K [11]
Miyauchi K [11]
Sasaki J [11]
Sato K [11]
Suzuki T [11]
Hemmi T [11]
Okumura K [11]
Nakada-nakura Y [11]
Tamura T [11]
Kuroda D [11]
Sumita H [11]
Suzuki S [10]
Tsuda M [10]
Wang L [10]
Liang YL [10]
Nasser H [10]
Noda T [10]
Takagi J [10]
Zhao X [10]
Iwasaki K [10]
Stapleton KM [10]
Miyazaki N [10]
Mizohata E [10]
Koizumi N [10]
Akichika S [10]
Josephs TM [10]
Mizobata T [10]
Ishibashi K [10]
Mitsuoka K [10]
Nakane T [10]
Nakamura S [10]
Standley DM [10]
Deguchi S [10]
Hallinan GI [9]
Lashley T [9]
Hasegawa M [9]
Ikeuchi T [9]
Kametani F [9]
Zhang X [9]
Makino F [9]
Scheres SHW [9]
Hosoya N [9]
Ghetti B [9]
Garringer HJ [9]
Zhang W [9]
Goedert M [9]
Vidal R [9]
Tanaka H [9]
Nishimura M [9]
Saito Y [9]
Narita A [9]
Shi Y [9]
Robinson AC [9]
Yang Y [9]
Tarutani A [9]
Kovacs GG [9]
Shioi T [9]
Ohkawa Y [8]

Journal

TO BE PUBLISHED [95]
NAT COMMUN [84]
SCI REP [41]
SCIENCE [37]
BIORXIV [35]
NATURE [27]
J BIOL CHEM [25]
SCI ADV [18]
NAT STRUCT MOL BIOL [17]
COMMUN BIOL [14]
PNAS NEXUS [14]
CELL [13]
NAT CHEM BIOL [11]
CELL REP [10]
ISCIENCE [10]
GENES CELLS [9]
MOL CELL [8]
NUCLEIC ACIDS RES [7]
STRUCTURE [7]
J.BIOCHEM. [6]
NAT METHODS [6]
FEBS J [5]
GENES DEV [5]
J MOL BIOL [5]
MICROBIOL IMMUNOL [5]
MICROSCOPY [5]
CELL HOST MICROBE [4]
ELIFE [4]
PNAS [4]
ACS PHARMACOL TRANSL SCI [3]
ACTA CRYSTALLOGR F STRUCT BIOL COMMUN [3]
BIOCHIM BIOPHYS ACTA BIOENERG [3]
EMBO J [3]
LIFE SCI ALLIANCE [2]
PLOS BIOL [2]
ACTA CRYSTALLOGR D STRUCT BIOL [1]
ANGEW CHEM INT ED ENGL [1]
BIOCHEM BIOPHYS RES COMMUN [1]
BIOCHEMISTRY [1]
BIOMATER SCI [1]
CHEM.COMMUN.(CAMB.) [1]
CHEMPLUSCHEM [1]
FEBS OPEN BIO [1]
J STRUCT BIOL [1]
J VIROL [1]
MABS [1]

Software

Microscope

Electron Source

Film or detector model

External links

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EMDB [528]

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EMD-69786

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3D View

Heimdallarchaeales alpha/beta tubulin microtubule with a single seam

CryoEM

Release date: June 10, 2026
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 24rt
Q-score: 0.599

Tran LT, Ali S, Matsumoto T, Yamazaki Y, Narita A, Miyazaki M, Robinson RC

To Be Published

EMD-69802

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3D View

Heimdallarchaeales alpha/beta tubulin microtubule with three seams

CryoEM

Release date: June 10, 2026
Resolution: 3.9 Å
EM Method: Helical reconstruction
Fitted PDBs: 24sw
Q-score: 0.314

Tran LT, Ali S, Matsumoto T, Yamazaki Y, Narita A, Miyazaki M, Robinson RC

To Be Published

EMD-56961

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Map of the 50S ribosomal subunit with E-tRNA and RsfS from the alphaproteobacteria Asaia platycodi

CryoEM

Release date: June 3, 2026
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 28ye
Q-score: 0.573

Chan LI, Melnikov SV

BioRXiv (2025) [ DOI: doi:10.1101/2025.11.04.686544v2.full ]

EMD-64638

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H4-4KAc chromatosome Class 1

CryoEM

Release date: June 3, 2026
Resolution: 2.92 Å
EM Method: Single-particle

Furukawa A, Echigoya K, Wakamori M, Ohtomo H, Tsunaka Y, Umehara T, Takizawa Y, Kurumizaka H, Nishimura Y

To Be Published

EMD-64639

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H4-4KAc chromatosome Class 2

CryoEM

Release date: June 3, 2026
Resolution: 2.89 Å
EM Method: Single-particle

Furukawa A, Echigoya K, Wakamori M, Ohtomo H, Tsunaka Y, Umehara T, Takizawa Y, Kurumizaka H, Nishimura Y

To Be Published

EMD-65174

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Structure of DOCK6-Cdc42 complex protomer

CryoEM

Release date: June 3, 2026
Resolution: 3.94 Å
EM Method: Single-particle
Fitted PDBs: 9vm2
Q-score: 0.405

Kukimoto-Niino M, Katsura K, Yoshimura K, Ishizuka-Katsura Y, Miyamoto Y, Yonemochi M, Hanada K, Yamauchi J, Wong RW, Shirouzu M

To Be Published

EMD-65175

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Structure of DOCK6-Cdc42 complex

CryoEM

Release date: June 3, 2026
Resolution: 4.52 Å
EM Method: Single-particle
Fitted PDBs: 9vm3
Q-score: 0.259

Kukimoto-Niino M, Katsura K, Yoshimura K, Ishizuka-Katsura Y, Miyamoto Y, Yonemochi M, Hanada K, Yamauchi J, Wong RW, Shirouzu M

To Be Published

EMD-65176

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Structure of DOCK6-Rac1 complex protomer

CryoEM

Release date: June 3, 2026
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 9vm4
Q-score: 0.358

Kukimoto-Niino M, Katsura K, Yoshimura K, Ishizuka-Katsura Y, Miyamoto Y, Yonemochi M, Hanada K, Yamauchi J, Wong RW, Shirouzu M

To Be Published

EMD-65177

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3D View

Structure of DOCK6-Rac1 complex

CryoEM

Release date: June 3, 2026
Resolution: 5.32 Å
EM Method: Single-particle
Fitted PDBs: 9vm5
Q-score: 0.253

Kukimoto-Niino M, Katsura K, Yoshimura K, Ishizuka-Katsura Y, Miyamoto Y, Yonemochi M, Hanada K, Yamauchi J, Wong RW, Shirouzu M

To Be Published

EMD-65178

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3D View

Structure of DOCK6 tetramer

CryoEM

Release date: June 3, 2026
Resolution: 4.27 Å
EM Method: Single-particle
Fitted PDBs: 9vm6
Q-score: 0.27

Kukimoto-Niino M, Katsura K, Yoshimura K, Ishizuka-Katsura Y, Miyamoto Y, Yonemochi M, Hanada K, Yamauchi J, Wong RW, Shirouzu M

To Be Published

Sort by: Download

Showing 1 - 10 of 528. Page 1 of 53

Display:

Statistics

Download

Select database:

EMDB [528]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

Download

Filter By

Current Database

Current status

Sample type

Organism

Homo sapiens [266]
Synthetic construct [112]
Escherichia coli [54]
Severe acute respiratory syndrome coronavirus [45]
Orthobornavirus bornaense [30]
Lama glama [29]
Thermococcus profundus [24]
Komagataella phaffii [24]
Mus musculus [20]
Komagataella phaffii [20]
Mycobacterium phage bxb1 [13]
Escherichia coli [13]
Leptospira biflexa [10]
Sus scrofa [10]
Mycolicibacterium smegmatis [8]
Rattus norvegicus [7]
Pseudomonas fluorescens [7]
Komagataella phaffii [7]
Arabidopsis thaliana [6]
Drosophila melanogaster [6]
Pseudomonas putida [5]
Clostridioides difficile [5]
Mus musculoides [5]
Clostridium botulinum [4]
Vicugna pacos [4]
Spinacia oleracea [4]
Saccharomyces cerevisiae [4]
Escherichia coli [4]
Chlorocebus aethiops [4]
Pseudomonas aeruginosa [3]
Thermus thermophilus [3]
Komagataella pastoris [3]
Saccharomyces cerevisiae [3]
Klebsiella pneumoniae [3]
Caenorhabditis elegans [3]
Salmo salar [3]
Leptolyngbya sp. o-77 [2]
Rhodospirillum rubrum [2]
Asaia platycodi [2]
Lloviu cuevavirus [2]
Odinarchaeota archaeon (strain lcb_4) [2]
Thermosynechococcus elongatus [2]
Shewanella putrefaciens [2]
Metagenome [2]
Enterobacteria phage t4 [2]
Thermus thermophilus [2]
Hydrogenophilus thermoluteolus [2]
Chlamydomonas reinhardtii [2]
Thermococcus kodakarensis [2]
(no species) [2]
Rhodomonas lens [2]
Clostridium botulinum [2]
Hydrogenobacter thermophilus [2]
Xenopus laevis [2]
Trachydiscus minutus [1]
Zaire ebolavirus [1]
Desulfitobacterium hafniense [1]
Clostridium beijerinckii [1]
Mycolicibacterium phlei [1]
Zaire ebolavirus [1]
Nitrospirota bacterium [1]
Tissierellia bacterium [1]
Spirochaetota bacterium [1]
Haloarcula marismortui [1]
Shewanella decolorationis [1]
[mycoplasma] mobile [1]
Alkalihalobacillus halodurans [1]
Klebsiella pneumoniae [1]
Ureaplasma parvum [1]
Schizosaccharomyces pombe [1]
Thermosynechococcus vulcanus [1]
Gloeobacter violaceus [1]
Thalassiosira pseudonana [1]
Marburg marburgvirus [1]
Halomonas eurihalina [1]
Schizosaccharomyces pombe [1]
Klebsiella pneumoniae [1]
Tetrahymena thermophila [1]
Linanthus concinnus [1]
6798959 [1]
Thermococcus kodakarensis [1]
Ostreococcus tauri [1]
Heloderma suspectum [1]
Gallus gallus [1]
Giraffa camelopardalis [1]
Oryctolagus cuniculus [1]

EM Method

Resolution

Model molecular weight

Release Date

Author by name

Kurumizaka H [117]
Takizawa Y [88]
Kujirai T [64]
Shirouzu M [64]
Ehara H [55]
Sekine SI [55]
Danev R [52]
Kato T [49]
Sugita Y [48]
Ogasawara M [42]
Namba K [40]
Sexton PM [38]
Wootten D [38]
Sekine S [37]
Sato K [35]
Belousoff MJ [34]
Maenaka K [34]
Kikkawa M [33]
Anraku Y [32]
Kita S [32]
Negishi L [32]
Hashiguchi T [31]
Hirai Y [30]
Horie M [30]
Ito J [30]
Fujita J [27]
Hatazawa S [27]
Suzuki T [27]
Nureki O [26]
Yajima H [26]
Christopoulos A [25]
Hiraizumi M [25]
Tanaka H [25]
Yamashita K [25]
Irie T [24]
Ishiguro K [24]
Liang YL [24]
Nakasako M [24]
Oide M [24]
Wakabayashi T [24]
Fletcher MM [23]
Inoue T [22]
Ito T [22]
Iwasaki K [22]
Makino F [22]
Matsuura Y [22]
Miyazaki N [22]
Nishimasu H [22]
Sasaki J [22]
Anzai I [21]
Kawamoto A [21]
Plianchaisuk A [21]
Tanaka S [21]
Yoshimura K [21]
Yokoyama T [20]
Deguchi S [19]
Fukuhara T [19]
Ikeda T [19]
Matsuno K [19]
Nao N [19]
Nasser H [19]
Oda Y [19]
Sasaki-tabata K [19]
Suzuki R [19]
Takahashi Y [19]
Takayama K [19]
Tamura T [19]
Tsuda M [19]
Uriu K [19]
Wang L [19]
Yoshimatsu K [19]
Johnson RM [18]
Ishizuka-katsura Y [17]
Katsura K [17]
Kobayashi T [17]
Kukimoto-niino M [17]
Oya E [17]
Shigematsu H [17]
Yanagisawa H [17]
Yonemochi M [17]
Kimura K [16]
Kimura KT [16]
Suzuki S [16]
Begum MM [15]
Cao J [15]
Goto SH [15]
Kobayashi Y [15]
Nozawa K [15]
Yamamoto Y [15]
Asakura H [14]
Fujino Y [14]
Kato J [14]
Miyauchi K [14]
Nagamoto T [14]
Nagashima M [14]
Nishizawa T [14]
Sadamasu K [14]
Saito A [14]
Sakaguchi Y [14]
Shimizu R [14]

Author by ORCID

Kurumizaka H [95]
Sekine SI [48]
Ehara H [46]
Takizawa Y [44]
Sugita Y [42]
Shirouzu M [42]
Kujirai T [40]
Danev R [36]
Wootten D [32]
Hirai Y [30]
Horie M [30]
Belousoff MJ [28]
Kato T [28]
Hatazawa S [26]
Namba K [25]
Anraku Y [24]
Fujita J [24]
Kita S [23]
Sexton PM [21]
Kikkawa M [19]
Anzai I [19]
Negishi L [19]
Kawamoto A [19]
Maenaka K [18]
Yokoyama T [17]
Kukimoto-niino M [17]
Plianchaisuk A [17]
Fletcher MM [16]
Hashiguchi T [16]
Kimura KT [16]
Yajima H [16]
Cao J [15]
Christopoulos A [15]
Goto SH [14]
Nozawa K [13]
Iwasaki S [13]
Hay DL [13]
Kotecha A [12]
Gerle C [12]
Kishikawa JI [12]
Takahashi Y [11]
Ishiguro K [11]
Yoshimatsu K [11]
Miyauchi K [11]
Sasaki J [11]
Sato K [11]
Suzuki T [11]
Hemmi T [11]
Okumura K [11]
Nakada-nakura Y [11]
Tamura T [11]
Kuroda D [11]
Sumita H [11]
Suzuki S [10]
Tsuda M [10]
Wang L [10]
Liang YL [10]
Nasser H [10]
Noda T [10]
Takagi J [10]
Zhao X [10]
Iwasaki K [10]
Stapleton KM [10]
Miyazaki N [10]
Mizohata E [10]
Koizumi N [10]
Akichika S [10]
Josephs TM [10]
Mizobata T [10]
Ishibashi K [10]
Mitsuoka K [10]
Nakane T [10]
Nakamura S [10]
Standley DM [10]
Deguchi S [10]
Hallinan GI [9]
Lashley T [9]
Hasegawa M [9]
Ikeuchi T [9]
Kametani F [9]
Zhang X [9]
Makino F [9]
Scheres SHW [9]
Hosoya N [9]
Ghetti B [9]
Garringer HJ [9]
Zhang W [9]
Goedert M [9]
Vidal R [9]
Tanaka H [9]
Nishimura M [9]
Saito Y [9]
Narita A [9]
Shi Y [9]
Robinson AC [9]
Yang Y [9]
Tarutani A [9]
Kovacs GG [9]
Shioi T [9]
Ohkawa Y [8]

Journal

TO BE PUBLISHED [95]
NAT COMMUN [84]
SCI REP [41]
SCIENCE [37]
BIORXIV [35]
NATURE [27]
J BIOL CHEM [25]
SCI ADV [18]
NAT STRUCT MOL BIOL [17]
COMMUN BIOL [14]
PNAS NEXUS [14]
CELL [13]
NAT CHEM BIOL [11]
CELL REP [10]
ISCIENCE [10]
GENES CELLS [9]
MOL CELL [8]
NUCLEIC ACIDS RES [7]
STRUCTURE [7]
J.BIOCHEM. [6]
NAT METHODS [6]
FEBS J [5]
GENES DEV [5]
J MOL BIOL [5]
MICROBIOL IMMUNOL [5]
MICROSCOPY [5]
CELL HOST MICROBE [4]
ELIFE [4]
PNAS [4]
ACS PHARMACOL TRANSL SCI [3]
ACTA CRYSTALLOGR F STRUCT BIOL COMMUN [3]
BIOCHIM BIOPHYS ACTA BIOENERG [3]
EMBO J [3]
LIFE SCI ALLIANCE [2]
PLOS BIOL [2]
ACTA CRYSTALLOGR D STRUCT BIOL [1]
ANGEW CHEM INT ED ENGL [1]
BIOCHEM BIOPHYS RES COMMUN [1]
BIOCHEMISTRY [1]
BIOMATER SCI [1]
CHEM.COMMUN.(CAMB.) [1]
CHEMPLUSCHEM [1]
FEBS OPEN BIO [1]
J STRUCT BIOL [1]
J VIROL [1]
MABS [1]

Software

Microscope

Electron Source

Film or detector model

External links