RCSB PDB: Search

Vassylyev, D.G., Vassylyeva, M.N., Artsimovitch, I.

3EQL	Download File View File

Crystal structure of the T. Thermophilus RNA polymerase holoenzyme in complex with antibiotic myxopyronin

(2009) Nature 457: 332-335

Released	2008-10-28
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Thermus thermophilus
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA polymerase sigma factor rpoD (protein)
Unique Ligands	MG, MXP, ZN

4WQS	Download File View File

Thermus thermophilus RNA polymerase backtracked complex

Murayama, Y., Sekine, S., Yokoyama, S.

(2015) Mol Cell 57: 408-421

Released	2015-02-18
Method	X-RAY DIFFRACTION 4.306 Å
Organisms	Thermus thermophilus HB8 unidentified
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 3
Unique Ligands	ZN

4WQT	Download File View File

Thermus thermophilus RNA polymerase complexed with an RNA cleavage stimulating factor (a GreA/Gfh1 chimeric protein)

Murayama, Y., Sekine, S., Yokoyama, S.

(2015) Mol Cell 57: 408-421

Released	2015-02-18
Method	X-RAY DIFFRACTION 4.4 Å
Organisms	Thermus thermophilus HB8
Macromolecule	DNA-directed RNA polymerase subunit alpha (protein) DNA-directed RNA polymerase subunit beta (protein) DNA-directed RNA polymerase subunit beta' (protein) DNA-directed RNA polymerase subunit omega (protein) RNA cleavage stimulating factor (GreA/Gfh1 chimeric protein Gre-C1) (protein)
Unique Ligands	MG, ZN

6AWB	Download File View File

Structure of 30S ribosomal subunit and RNA polymerase complex in non-rotated state

Demo, G., Rasouly, A., Vasilyev, N., Loveland, A.B., Diaz-Avalos, R., Grigorieff, N., Nudler, E., Korostelev, A.A.

(2017) Elife 6:

Released	2017-10-18
Method	ELECTRON MICROSCOPY 6.7 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 25 Unique nucleic acid chains: 1

6AWC	Download File View File

Structure of 30S ribosomal subunit and RNA polymerase complex in rotated state

Demo, G., Rasouly, A., Vasilyev, N., Loveland, A.B., Diaz-Avalos, R., Grigorieff, N., Nudler, E., Korostelev, A.A.

(2017) Elife 6:

Released	2017-10-18
Method	ELECTRON MICROSCOPY 7.9 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 25 Unique nucleic acid chains: 1

6AWD	Download File View File

Structure of 30S (S1 depleted) ribosomal subunit and RNA polymerase complex

Demo, G., Rasouly, A., Vasilyev, N., Loveland, A.B., Diaz-Avalos, R., Grigorieff, N., Nudler, E., Korostelev, A.A.

(2017) Elife 6:

Released	2017-10-18
Method	ELECTRON MICROSCOPY 8.1 Å
Organisms	Escherichia coli
Macromolecule	Unique protein chains: 24 Unique nucleic acid chains: 1

Bodnar, N.O., Rapoport, T.A.

6CDD	Download File View File

Npl4 zinc finger and MPN domains (Chaetomium thermophilum)

(2018) Nat Struct Mol Biol 25: 616-622

Released	2018-07-04
Method	X-RAY DIFFRACTION 2.58233712092 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Npl4 zinc finger (protein)
Unique Ligands	ZN

6CHS	Download File View File

Cdc48-Npl4 complex in the presence of ATP-gamma-S

Kim, K.H., Bodnar, N.O., Walz, T., Rapoport, T.A.

(2018) Nat Struct Mol Biol 25: 616-622

Released	2018-07-04
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Thermochaetoides thermophila DSM 1495
Macromolecule	Npl4 (protein) Putative cell division control protein (protein)
Unique Ligands	AGS, MG, ZN

6O96	Download File View File

Dot1L bound to the H2BK120 Ubiquitinated nucleosome

Valencia-Sanchez, M.I., De Ioannes, P.E., Miao, W., Vasilyev, N., Chen, R., Nudler, E., Armache, J.-P., Armache, K.-J.

(2019) Mol Cell 74: 1010

Released	2019-04-24
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Homo sapiens Xenopus laevis synthetic construct
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2
Unique Ligands	SAH

6VJY	Download File View File

Cryo-EM structure of Hrd1/Hrd3 monomer

(2020) Science 368:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	ERAD-associated E3 ubiquitin-protein ligase HRD1 (protein) ERAD-associated E3 ubiquitin-protein ligase component HRD3 (protein)

6VJZ	Download File View File

CryoEM structure of Hrd1-Usa1/Der1/Hrd3 complex of the expected topology

(2020) Science 368:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Degradation in the endoplasmic reticulum protein 1 (protein) ERAD-associated E3 ubiquitin-protein ligase HRD1 (protein) ERAD-associated E3 ubiquitin-protein ligase component HRD3 (protein) U1 SNP1-associating protein 1 (protein)

6VK0	Download File View File

CryoEM structure of Hrd1-Usa1/Der1/Hrd3 of the flipped topology

(2020) Science 368:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Degradation in the endoplasmic reticulum protein 1 (protein) ERAD-associated E3 ubiquitin-protein ligase HRD1 (protein) ERAD-associated E3 ubiquitin-protein ligase component HRD3 (protein) U1 SNP1-associating protein 1 (protein)

6VK1	Download File View File

CryoEM structure of Hrd1/Hrd3 part from Hrd1-Usa1/Der1/Hrd3 complex

(2020) Science 368:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	ERAD-associated E3 ubiquitin-protein ligase HRD1 (protein) ERAD-associated E3 ubiquitin-protein ligase component HRD3 (protein)

6VK3	Download File View File

CryoEM structure of Hrd3/Yos9 complex

(2020) Science 368:

Released	2020-04-29
Method	ELECTRON MICROSCOPY 3.7 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Hrd3 (protein) Protein OS-9 homolog (protein)

6XAS	Download File View File

CryoEM Structure of E. coli Rho-dependent Transcription Pre-termination Complex

Hao, Z.T., Kim, H.K., Walz, T., Nudler, E.

(2021) Mol Cell 81: 281

Released	2020-12-16
Method	ELECTRON MICROSCOPY 3.8 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 3
Unique Ligands	MG, ZN

6XAV	Download File View File

CryoEM Structure of E. coli Rho-dependent Transcription Pre-termination Complex bound with NusG

Hao, Z.T., Kim, H.K., Walz, T., Nudler, E.

(2021) Mol Cell 81: 281

Released	2020-12-16
Method	ELECTRON MICROSCOPY 7.7 Å
Organisms	Escherichia coli K-12
Macromolecule	Unique protein chains: 7 Unique nucleic acid chains: 3
Unique Ligands	MG, ZN

7EGS	Download File View File

The crystal structure of lobe domain of E. coli RNA polymerase complexed with the C-terminal domain of UvrD

Zheng, F., Shen, L., Li, L., Zhang, Y.

(2022) Nature 604: 152-159

Released	2022-04-06
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA helicase II (protein) DNA-directed RNA polymerase subunit beta (protein)
Unique Ligands	GOL

7EGT	Download File View File

The crystal structure of the C-terminal domain of T. thermophilus UvrD complexed with the N-terminal domain of UvrB

Zheng, F., Shen, L., Li, L., Zhang, Y.

(2022) Nature 604: 152-159

Released	2022-04-06
Method	X-RAY DIFFRACTION 2.581 Å
Organisms	Thermus thermophilus Thermus thermophilus HB8
Macromolecule	DNA helicase UvrD (protein) UvrABC system protein B (protein)

7KSO	Download File View File

Cryo-EM structure of PRC2:EZH1-AEBP2-JARID2

(2021) Nat Commun 12: 714-714

Released	2021-02-03
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 6
Unique Ligands	ZN

7KSR	Download File View File

PRC2:EZH1_A from a dimeric PRC2 bound to a nucleosome

(2021) Nat Commun 12: 714-714

Released	2021-02-03
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens
Macromolecule	Histone-binding protein RBBP4 (protein) Histone-lysine N-methyltransferase EZH1 (protein) Polycomb protein EED (protein) Polycomb protein SUZ12 (protein)
Unique Ligands	ZN

7KTP	Download File View File

PRC2:EZH1_B from a dimeric PRC2 bound to a nucleosome

(2021) Nat Commun 12: 714-714

Released	2021-02-03
Method	ELECTRON MICROSCOPY 4.8 Å
Organisms	Homo sapiens
Macromolecule	Histone-binding protein RBBP4 (protein) Histone-lysine N-methyltransferase EZH1 (protein) Polycomb protein EED (protein) Polycomb protein SUZ12 (protein)
Unique Ligands	ZN

7KTQ	Download File View File

Nucleosome from a dimeric PRC2 bound to a nucleosome

(2021) Nat Commun 12: 714-714

Released	2021-02-03
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Homo sapiens Xenopus laevis
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

Valencia-Sanchez, M.I., Abini-Agbomson, S., Armache, K.-J.

7LV8	Download File View File

Structure of the Marseillevirus nucleosome

(2021) Nat Struct Mol Biol 28: 413-417

Released	2021-05-05
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Marseillevirus marseillevirus synthetic construct
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

Valencia-Sanchez, M.I., Abini-Agbomson, S., Armache, K.-J.

7LV9	Download File View File

Marseillevirus heterotrimeric (hexameric) nucleosome

(2021) Nat Struct Mol Biol 28: 413-417

Released	2021-05-05
Method	ELECTRON MICROSCOPY 4.5 Å
Organisms	Marseillevirus marseillevirus synthetic construct
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2