EMDB < Search results

EMBL

was set up in 1974 as Europe’s flagship laboratory for the life sciences – an intergovernmental organisation with more than 80 independent research groups covering the spectrum of molecular biology:

Research:

perform basic research in molecular biology

Services:

offer vital services to scientists in the member states

Training

scientists, students and visitors at all levels

Transfer

and development of technology

Develop

new instruments and methods

Integrating

life science research in Europe

More about EMBL

Six sites

represent EMBL in Europe.

Barcelona

Tissue biology and disease modelling

Grenoble

Structural biology

Hamburg

Structural biology

Heidelberg

Main laboratory

Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

Edit your search query here and hit Return to execute it:

sample_name:"IRON/SULFUR CLUSTER" AND xref_links:"cpx" AND author_orcid:"0000-0002-2172-5110"

Sort by: Download

Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

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

Preview first 10

EMD-16610

Download Map 3D View

Yeast RNA polymerase II transcription pre-initiation complex with core Mediator

Release date: March 22, 2023
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8cen
Q-score: 0.269

Schilbach S, Wang H, Dienemann C, Cramer P

PNAS (2023) 120 pp. e2220542120-e2220542120 [ Pubmed: 37014863 DOI: doi:10.1073/pnas.2220542120 ]

Sample:

Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae)
Nontemplate dna (209-mer) (64 kDa, DNA from synthetic construct)
Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from baker's yeast)
Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from baker's yeast)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from baker's yeast)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from baker's yeast)
Transcription initiation factor iib (39 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from baker's yeast)
Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from baker's yeast)
Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae)
Dna (Complex from Synthetic construct)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from baker's yeast)
Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit tfb4 (37 kDa, Protein from Saccharomyces cerevisiae)
Yeast rna polymerase ii transcription pre-initiation complex with core mediator (2 MDa, Complex)
General transcription and dna repair factors, and rna polymerase ii transcription factor b subunit 3 (Complex from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Dna-directed rna polymerase subunits (Complex from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from baker's yeast)
Transcription initiation factor iia large subunit (32 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 31 (14 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iie subunit alpha (55 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factors and mediator of rna polymerase ii transcription subunits (Complex from Saccharomyces cerevisiae)
Iron/sulfur cluster (351 Da, Ligand)
Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae)
Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from baker's yeast)
Mediator of rna polymerase ii transcription subunit 14 (84 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 4 (32 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit tfb5 (8 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih helicase subunit xpb (95 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from baker's yeast)
Tata-binding protein (27 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from baker's yeast)
General transcription and dna repair factor iih subunit tfb1 (72 kDa, Protein from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb3 (38 kDa, Protein from baker's yeast)
Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae)
Mediator of rna polymerase ii transcription subunit 1 (64 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit tfb2 (58 kDa, Protein from Saccharomyces cerevisiae)
General transcription and dna repair factor iih subunit ssl1 (52 kDa, Protein from Saccharomyces cerevisiae)
Template dna (209-mer) (64 kDa, DNA from synthetic construct)
General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-4970

Download Map 3D View

Structure of the core TFIIH-XPA-DNA complex

Release date: July 3, 2019
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 6ro4
Q-score: 0.449

Kokic G, Chernev A, Tegunov D, Dienemann C, Urlaub H, Cramer P

Nat Commun (2019) 10 pp. 2885-2885 [ Pubmed: 31253769 DOI: doi:10.1038/s41467-019-10745-5 ]

Sample:

Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
Iron/sulfur cluster (351 Da, Ligand)
Dna2 (15 kDa, DNA from Homo sapiens)
General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
Tfiih-xpa (Complex from Homo sapiens)
Zinc ion (65 Da, Ligand)
Dna (Complex from Homo sapiens)
General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
Dna repair protein complementing xp-a cells (31 kDa, Protein from Homo sapiens)
Core tfiih-xpa-dna complex (Complex)
Dna1 (15 kDa, DNA from Homo sapiens)
General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)

[Show more]

EMD-0092

Download Map 3D View

Structure of a yeast closed complex with distorted DNA (CCdist)

Release date: Dec. 5, 2018
Resolution: 6.7 Å
EM Method: Single-particle
Fitted PDBs: 6gym
Q-score: 0.219

Dienemann C, Schwalb B, Schilbach S, Cramer P

Mol Cell (2019) 73 pp. 97-106.e4 [ Pubmed: 30472190 DOI: doi:10.1016/j.molcel.2018.10.014 ]

Sample:

[Show more]

EMD-3850

Download Map 3D View

STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH AND CORE MEDIATOR

Release date: May 9, 2018
Resolution: 5.8 Å
EM Method: Single-particle
Fitted PDBs: 5oqm
Q-score: 0.183

Schilbach S, Hantsche M, Tegunov D, Dienemann C, Wigge C, Urlaub H, Cramer P

Nature (2017) 551 pp. 204-209 [ DOI: doi:10.1038/nature24282 Pubmed: 29088706 ]

Sample:

Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 14 (84 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Template dna (32 kDa, DNA from synthetic construct)
Pre-initiation complex with core mediator (pic-cmed) (1 MDa, Complex)
Unknown protein (3 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih subunit tfb4 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 7 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 17 (78 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih helicase subunit xpd (89 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih subunit ssl1 (51 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 9 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription (Complex from Saccharomyces cerevisiae)
Transcription initiation factor iif subunit alpha (83 kDa, Protein from Saccharomyces cerevisiae)
Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 8 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iia large subunit (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 31,mediator of rna polymerase ii transcription subunit 31 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih helicase subunit xpb (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 21 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Dna-directed rna polymerase (Complex from Saccharomyces cerevisiae)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 6 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 10 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 19 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 22 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nontemplate dna (32 kDa, DNA from synthetic construct)
Dna (Complex from synthetic construct)
Rna polymerase ii transcription factor b (Complex from Saccharomyces cerevisiae)
Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih subunit tfb1 (53 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription factor tfiie subunit (59 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Mediator of rna polymerase ii transcription subunit 18 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Iron/sulfur cluster (351 Da, Ligand)
General transcription and dna repair factor iih subunit tfb2 (60 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Tata-box-binding protein (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
General transcription and dna repair factor iih subunit tfb5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Mediator of rna polymerase ii transcription subunit 20 (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

EMD-3846

Download Map 3D View

STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH

Release date: April 25, 2018
Resolution: 4.7 Å
EM Method: Single-particle
Fitted PDBs: 5oqj
Q-score: 0.249

Schilbach S, Hantsche M, Tegunov D, Dienemann C, Wigge C, Urlaub H, Cramer P

Nature (2017) 551 pp. 204-209 [ DOI: doi:10.1038/nature24282 Pubmed: 29088706 ]

Sample:

Template dna (32 kDa, DNA from synthetic construct)
Transcription initiation factor iia large subunit (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb4 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleic acid (Complex from synthetic construct)
Nontemplate dna (32 kDa, DNA from synthetic construct)
Transcription factors (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb11 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Suppressor of stem-loop protein 1 (51 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Transcription initiation factor iia subunit 2 (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 4 (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb3 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iif subunit alpha (82 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 2 (48 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iib (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Tata-box-binding protein (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Iron/sulfur cluster (351 Da, Ligand)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iie subunit beta (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 1 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb1 (191 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Transcription initiation factor iie subunit alpha (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerase ii subunit rpb2 (138 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Polymerase (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna polymerase ii transcription factor b subunit 3 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unknown protein (3 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dna repair helicase rad25 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-initiation complex (pic) (1 MDa, Complex)
Dna repair helicase rad3 (89 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Initiation factors (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Transcription initiation factor iif subunit beta (46 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

Sort by: Download

Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

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

Preview first 10

Field: