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author:"Dybkov O"

Filter By

Current Database

  • EMDB [121]
  • EMPIAR [3]

Current status

  • REL [124]

Sample type

  • Complex [120]
  • Protein [59]
  • RNA [49]
  • Ligand [33]
  • DNA [15]
  • Sample [1]

Organism

  • Homo sapiens [100]
  • Synthetic construct [19]
  • Sus scrofa [14]
  • Saccharomyces cerevisiae [7]
  • Nipah virus [6]
  • Saccharomyces cerevisiae [5]
  • Trichoplusia ni [3]
  • Schizosaccharomyces pombe [2]
  • Escherichia phage lambda [1]
  • Human immunodeficiency virus 1 [1]
  • Escherichia coli [1]
  • Escherichia coli [1]
  • Sus scrofa [1]

EM Method

  • Single-particle [121]

Resolution

  • ≥ 2Å and < 3Å [11]
  • ≥ 3Å and < 4Å [35]
  • ≥ 4Å and < 5Å [28]
  • ≥ 5Å and < 6Å [9]
  • ≥ 6Å and < 8Å [14]
  • ≥ 8Å and < 12Å [13]
  • ≥ 12Å and < 16Å [3]
  • ≥ 16Å and < 20Å [5]
  • ≥ 20Å and < 30Å [2]
  • ≥ 30Å [1]

Model molecular weight

  • 100-250 kDa [2]
  • 250-500 kDa [4]
  • 500-1000 kDa [10]
  • 1-2 MDa [21]
  • 2-5 MDa [19]

Release Date

  • 2026 [3]
  • 2025 [15]
  • 2024 [43]
  • 2023 [14]
  • 2021 [10]
  • 2020 [12]
  • 2018 [18]
  • 2017 [7]
  • 2016 [2]

Author by name

  • Dybkov O [122]
  • Urlaub H [122]
  • Stark H [78]
  • Luhrmann R [75]
  • Kastner B [69]
  • Will CL [58]
  • Luehrmann R [54]
  • Zhang Z [41]
  • Kumar V [40]
  • Agafonov DE [39]
  • Zhong J [29]
  • Hartmuth K [28]
  • Cramer P [27]
  • Dienemann C [27]
  • Ludwig SEJ [27]
  • Haselbach D [22]
  • Bertram K [20]
  • Ludwig S [19]
  • Agafonov D [17]
  • Graf B [17]
  • Komarov I [17]
  • Chen Y [14]
  • Kokic G [13]
  • Ochmann M [13]
  • Walshe JL [13]
  • Leelaram MN [10]
  • Neef U [10]
  • Oberthur C [10]
  • Zheenbekova A [10]
  • El Ayoubi L [7]
  • Ditter K [6]
  • Fourmann JB [6]
  • Hillen HS [6]
  • Linden A [6]
  • Rigo N [6]
  • Sala F [6]
  • Sala FA [6]
  • Townsend C [6]
  • Barrientos A [5]
  • Bouquio D [5]
  • Conrad J [5]
  • De Silva D [5]
  • Ferrari A [5]
  • Kim HJ [5]
  • Ott M [5]
  • Rathore S [5]
  • Salvatori R [5]
  • Fianu I [4]
  • Cruz JN [3]
  • Liu WT [3]
  • Bohnsack KE [2]
  • Duering J [2]
  • During J [2]
  • Fischer T [2]
  • Flemming D [2]
  • Fokkens TJ [2]
  • Henning U [2]
  • Hofele R [2]
  • Horvath A [2]
  • Lee CT [2]
  • Lorenz S [2]
  • Lu Hrmann R [2]
  • Schwan M [2]
  • Sinning I [2]
  • Soni K [2]
  • Steinchen W [2]
  • Toplak JJ [2]
  • Torres C [2]
  • Trakansuebkul S [2]
  • Wild K [2]
  • Wolter M [2]
  • Anedchenko E [1]
  • Behrmann E [1]
  • Burger J [1]
  • Chari A [1]
  • Fabrizio P [1]
  • Feng VY [1]
  • Girard C [1]
  • Harnisch C [1]
  • Heyd F [1]
  • Hofele RV [1]
  • Huang YH [1]
  • Krupp F [1]
  • Leupold P [1]
  • Loerke J [1]
  • Loll B [1]
  • Lührmann R [1]
  • Merz K [1]
  • Mielke T [1]
  • Pena V [1]
  • Preussner M [1]
  • Rauhut R [1]
  • Said N [1]
  • Santos KF [1]
  • Spahn CMT [1]
  • Wahl MC [1]
  • Weber G [1]
  • Yudichev P [1]

Author by ORCID

  • Dybkov O [66]
  • Urlaub H [64]
  • Stark H [36]
  • Luhrmann R [36]
  • Zhang Z [33]
  • Kumar V [32]
  • Haselbach D [21]
  • Cramer P [17]
  • Chen Y [14]
  • Dienemann C [14]
  • Walshe JL [13]
  • Ochmann M [13]
  • Bertram K [11]
  • Hillen HS [6]
  • Agafonov DE [6]
  • Kastner B [6]
  • Townsend C [5]
  • Leelaram MN [5]
  • Fianu I [4]
  • Bohnsack KE [2]
  • Sinning I [2]
  • Wild K [2]
  • Flemming D [2]
  • Soni K [2]
  • Fischer T [2]
  • Lorenz S [2]
  • Wolter M [2]
  • During J [2]
  • Fokkens TJ [2]
  • Preussner M [1]
  • Chari A [1]
  • Loll B [1]
  • Heyd F [1]
  • Wahl MC [1]
  • Harnisch C [1]
  • Linden A [1]
  • Leupold P [1]
  • Pena V [1]
  • Feng VY [1]
  • Luehrmann R [1]

Journal

  • NATURE [40]
  • CELL [22]
  • NAT STRUCT MOL BIOL [17]
  • NAT COMMUN [16]
  • SCIENCE [10]
  • MOL CELL [6]
  • ACTA CRYSTALLOGR D STRUCT BIOL [5]
  • BIOCHIM BIOPHYS ACTA MOL CELL RES [5]
  • EMBO J [4]
  • TO BE PUBLISHED [2]
  • NAT MICROBIOL [1]
  • SCI ADV [1]

Software

  • RELION [52]
  • EMAN2 [17]
  • GCTF [17]
  • CRYOSPARC [8]
  • CTFFIND [1]

Microscope

  • FEI TITAN KRIOS [106]
  • TFS KRIOS [12]
  • FEI POLARA 300 [1]
  • FEI TITAN [1]
  • TFS TITAN THEMIS [1]

Electron Source

  • FIELD EMISSION GUN [121]

Film or detector model

  • FEI FALCON III 4K X 4K [75]
  • GATAN K3 BIOQUANTUM 6K X 4K [20]
  • GATAN K3 6K X 4K [17]
  • FEI FALCON II 4K X 4K [4]
  • GATAN K2 SUMMIT 4K X 4K [4]
  • GATAN K3 BIOCONTINUUM 6K X 4K [1]

EMPIAR Experiment type

  • EMDB [3]

EMPIAR Image category

  • MICROGRAPHS - SINGLE FRAME [3]

External links

  • PDB [121]
  • AlphaFold DB [59]
  • PDBe-Kb [59]
  • UniProt [59]
  • Gene Ontology [53]
  • Pfam [53]
  • InterPro [52]
  • ChEBI [33]
  • ChEMBL [33]
  • DrugBank [33]
  • Complex Portal [22]
  • EMPIAR [14]
  • EMDB [3]
  • SCOP2 [2]
  • CATH [1]
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Showing 1 - 10 of 124. Page 1 of 13
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EMD-53843
Download Map
3D View
Cryo-EM structure of the human pre-Bact-OTS complex whole map
CryoEM
Release date: May 27, 2026
Resolution: 8.5 Å
EM Method: Single-particle
Fitted PDBs: 9r8v
Q-score: 0.166

Zhang Z, Kumar V, Dybkov O, Zhong J, Kastner B, Henning U, Luehrmann R

To Be Published

EMD-53554
Download Map
3D View
Cryo-EM structure of the human pre-Bact-OTS complex whole map
CryoEM
Release date: May 13, 2026
Resolution: 3.12 Å
EM Method: Single-particle
Fitted PDBs: 9r3d
Q-score: 0.451

Zhang Z, Kumar V, Dybkov O, Zhong J, Kastner B, Henning U, Luehrmann R

To Be Published

EMD-54401
Download Map
3D View
State 2 MAP 3 RNA Pol II activated elongation complex with SETD2 bound to proximal upstream H3
CryoEM
Release date: March 18, 2026
Resolution: 8.53 Å
EM Method: Single-particle
Fitted PDBs: 9rze
Q-score: 0.068

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-51643
Download Map
3D View
State 2 MAP 1 SETD2 bound to proximal H3 of upstream nucleosome
CryoEM
Release date: Nov. 12, 2025
Resolution: 4.84 Å
EM Method: Single-particle
Fitted PDBs: 9gw2
Q-score: 0.359

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54537
Download Map
3D View
State 1 MAP3 RNA Pol II activated elongation complex with SETD2 and upstream hexasome
CryoEM
Release date: Nov. 12, 2025
Resolution: 6.4 Å
EM Method: Single-particle
Fitted PDBs: 9s3g
Q-score: 0.187

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54247
Download Map
3D View
State 2 MAP 2 SPT6 with SETD2
CryoEM
Release date: Sept. 24, 2025
Resolution: 3.82 Å
EM Method: Single-particle
Fitted PDBs: 9rtn
Q-score: 0.322

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54399
Download Map
3D View
State 3 MAP 1 SETD2 bound to distal H3 of upstream nucleosome
CryoEM
Release date: Sept. 24, 2025
Resolution: 3.66 Å
EM Method: Single-particle
Fitted PDBs: 9rzc
Q-score: 0.434

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54400
Download Map
3D View
State 3 MAP 2 SPT6 with SETD2
CryoEM
Release date: Sept. 24, 2025
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 9rzd
Q-score: 0.387

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54425
Download Map
3D View
State 3 MAP 3 RNA Pol II activated elongation complex with SETD2 bound to distal upstream H3
CryoEM
Release date: Sept. 24, 2025
Resolution: 6.72 Å
EM Method: Single-particle
Fitted PDBs: 9s0u
Q-score: 0.108

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

EMD-54538
Download Map
3D View
State 1 MAP1 RNA Pol II activated elongation complex with SETD2 and upstream hexasome
CryoEM
Release date: Sept. 24, 2025
Resolution: 3.89 Å
EM Method: Single-particle

Walshe JL, Ochmann M, Neef U, Dybkov O, Dienemann C, Oberthur C, Zheenbekova A, Urlaub H, Cramer P

Nat Commun (2025) 16 pp. 9565-9565 [ DOI: doi:10.1038/s41467-025-65439-y Pubmed: 41162378 ]

Sort by: Download
Showing 1 - 10 of 124. Page 1 of 13
Display:
Statistics
×

Download












































Preview first 10
Download

Filter By

Current Database

  • EMDB [121]
  • EMPIAR [3]

Current status

  • REL [124]

Sample type

  • Complex [120]
  • Protein [59]
  • RNA [49]
  • Ligand [33]
  • DNA [15]
  • Sample [1]

Organism

  • Homo sapiens [100]
  • Synthetic construct [19]
  • Sus scrofa [14]
  • Saccharomyces cerevisiae [7]
  • Nipah virus [6]
  • Saccharomyces cerevisiae [5]
  • Trichoplusia ni [3]
  • Schizosaccharomyces pombe [2]
  • Escherichia phage lambda [1]
  • Human immunodeficiency virus 1 [1]
  • Escherichia coli [1]
  • Escherichia coli [1]
  • Sus scrofa [1]

EM Method

  • Single-particle [121]

Resolution

  • ≥ 2Å and < 3Å [11]
  • ≥ 3Å and < 4Å [35]
  • ≥ 4Å and < 5Å [28]
  • ≥ 5Å and < 6Å [9]
  • ≥ 6Å and < 8Å [14]
  • ≥ 8Å and < 12Å [13]
  • ≥ 12Å and < 16Å [3]
  • ≥ 16Å and < 20Å [5]
  • ≥ 20Å and < 30Å [2]
  • ≥ 30Å [1]

Model molecular weight

  • 100-250 kDa [2]
  • 250-500 kDa [4]
  • 500-1000 kDa [10]
  • 1-2 MDa [21]
  • 2-5 MDa [19]

Release Date

  • 2026 [3]
  • 2025 [15]
  • 2024 [43]
  • 2023 [14]
  • 2021 [10]
  • 2020 [12]
  • 2018 [18]
  • 2017 [7]
  • 2016 [2]

Author by name

  • Dybkov O [122]
  • Urlaub H [122]
  • Stark H [78]
  • Luhrmann R [75]
  • Kastner B [69]
  • Will CL [58]
  • Luehrmann R [54]
  • Zhang Z [41]
  • Kumar V [40]
  • Agafonov DE [39]
  • Zhong J [29]
  • Hartmuth K [28]
  • Cramer P [27]
  • Dienemann C [27]
  • Ludwig SEJ [27]
  • Haselbach D [22]
  • Bertram K [20]
  • Ludwig S [19]
  • Agafonov D [17]
  • Graf B [17]
  • Komarov I [17]
  • Chen Y [14]
  • Kokic G [13]
  • Ochmann M [13]
  • Walshe JL [13]
  • Leelaram MN [10]
  • Neef U [10]
  • Oberthur C [10]
  • Zheenbekova A [10]
  • El Ayoubi L [7]
  • Ditter K [6]
  • Fourmann JB [6]
  • Hillen HS [6]
  • Linden A [6]
  • Rigo N [6]
  • Sala F [6]
  • Sala FA [6]
  • Townsend C [6]
  • Barrientos A [5]
  • Bouquio D [5]
  • Conrad J [5]
  • De Silva D [5]
  • Ferrari A [5]
  • Kim HJ [5]
  • Ott M [5]
  • Rathore S [5]
  • Salvatori R [5]
  • Fianu I [4]
  • Cruz JN [3]
  • Liu WT [3]
  • Bohnsack KE [2]
  • Duering J [2]
  • During J [2]
  • Fischer T [2]
  • Flemming D [2]
  • Fokkens TJ [2]
  • Henning U [2]
  • Hofele R [2]
  • Horvath A [2]
  • Lee CT [2]
  • Lorenz S [2]
  • Lu Hrmann R [2]
  • Schwan M [2]
  • Sinning I [2]
  • Soni K [2]
  • Steinchen W [2]
  • Toplak JJ [2]
  • Torres C [2]
  • Trakansuebkul S [2]
  • Wild K [2]
  • Wolter M [2]
  • Anedchenko E [1]
  • Behrmann E [1]
  • Burger J [1]
  • Chari A [1]
  • Fabrizio P [1]
  • Feng VY [1]
  • Girard C [1]
  • Harnisch C [1]
  • Heyd F [1]
  • Hofele RV [1]
  • Huang YH [1]
  • Krupp F [1]
  • Leupold P [1]
  • Loerke J [1]
  • Loll B [1]
  • Lührmann R [1]
  • Merz K [1]
  • Mielke T [1]
  • Pena V [1]
  • Preussner M [1]
  • Rauhut R [1]
  • Said N [1]
  • Santos KF [1]
  • Spahn CMT [1]
  • Wahl MC [1]
  • Weber G [1]
  • Yudichev P [1]

Author by ORCID

  • Dybkov O [66]
  • Urlaub H [64]
  • Stark H [36]
  • Luhrmann R [36]
  • Zhang Z [33]
  • Kumar V [32]
  • Haselbach D [21]
  • Cramer P [17]
  • Chen Y [14]
  • Dienemann C [14]
  • Walshe JL [13]
  • Ochmann M [13]
  • Bertram K [11]
  • Hillen HS [6]
  • Agafonov DE [6]
  • Kastner B [6]
  • Townsend C [5]
  • Leelaram MN [5]
  • Fianu I [4]
  • Bohnsack KE [2]
  • Sinning I [2]
  • Wild K [2]
  • Flemming D [2]
  • Soni K [2]
  • Fischer T [2]
  • Lorenz S [2]
  • Wolter M [2]
  • During J [2]
  • Fokkens TJ [2]
  • Preussner M [1]
  • Chari A [1]
  • Loll B [1]
  • Heyd F [1]
  • Wahl MC [1]
  • Harnisch C [1]
  • Linden A [1]
  • Leupold P [1]
  • Pena V [1]
  • Feng VY [1]
  • Luehrmann R [1]

Journal

  • NATURE [40]
  • CELL [22]
  • NAT STRUCT MOL BIOL [17]
  • NAT COMMUN [16]
  • SCIENCE [10]
  • MOL CELL [6]
  • ACTA CRYSTALLOGR D STRUCT BIOL [5]
  • BIOCHIM BIOPHYS ACTA MOL CELL RES [5]
  • EMBO J [4]
  • TO BE PUBLISHED [2]
  • NAT MICROBIOL [1]
  • SCI ADV [1]

Software

  • RELION [52]
  • EMAN2 [17]
  • GCTF [17]
  • CRYOSPARC [8]
  • CTFFIND [1]

Microscope

  • FEI TITAN KRIOS [106]
  • TFS KRIOS [12]
  • FEI POLARA 300 [1]
  • FEI TITAN [1]
  • TFS TITAN THEMIS [1]

Electron Source

  • FIELD EMISSION GUN [121]

Film or detector model

  • FEI FALCON III 4K X 4K [75]
  • GATAN K3 BIOQUANTUM 6K X 4K [20]
  • GATAN K3 6K X 4K [17]
  • FEI FALCON II 4K X 4K [4]
  • GATAN K2 SUMMIT 4K X 4K [4]
  • GATAN K3 BIOCONTINUUM 6K X 4K [1]

EMPIAR Experiment type

  • EMDB [3]

EMPIAR Image category

  • MICROGRAPHS - SINGLE FRAME [3]

External links

  • PDB [121]
  • AlphaFold DB [59]
  • PDBe-Kb [59]
  • UniProt [59]
  • Gene Ontology [53]
  • Pfam [53]
  • InterPro [52]
  • ChEBI [33]
  • ChEMBL [33]
  • DrugBank [33]
  • Complex Portal [22]
  • EMPIAR [14]
  • EMDB [3]
  • SCOP2 [2]
  • CATH [1]