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234,440 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Pinilla-Redondo, R."

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Search Summary

This query matches 9 Structures.

Refinements

Structure Determination Methodology

experimental (9)

Scientific Name of Source Organism

	Klebsiella pneumoniae (4)
	Escherichia coli BL21(DE3) (3)
	Ectopseudomonas oleovorans (2)

Taxonomy

Bacteria (9)

Experimental Method

ELECTRON MICROSCOPY (9)

Polymer Entity Type

	DNA (9)
	Protein (9)
	RNA (9)

Refinement Resolution (Å)

	2.5 - 3.0 (5)
	3.0 - 3.5 (4)

Release Date

2020 - 2024 (9)

Enzyme Classification Name

	Isomerases (3)
	Transferases (3)

Symmetry Type

	Asymmetric (8)
	Cyclic (1)

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1 to 9 of 9 Structures

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8QBK \| pdb_00008qbk	Download File View File

Retron-Eco1 filament with ADP-ribosylated Effector (local map with 1 segment)

Carabias del Rey, A., Montoya, G.

(2024) Mol Cell 84: 2185

Released	2024-06-05
Method	ELECTRON MICROSCOPY 2.99 Å
Organisms	Escherichia coli BL21(DE3)
Macromolecule	Retron Ec86 putative ribosyltransferase/DNA-binding protein (protein) Retron Ec86 reverse transcriptase (protein) Retron-Eco1 msDNA (nucleic acid) Retron-Eco1-A2 (nucleic acid) Retron-Eco1-msr (nucleic acid)
Unique Ligands	AR6, MG

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8QBL \| pdb_00008qbl	Download File View File

Retron-Eco1 filament with inactive effector (E106A, 2 segments)

Carabias del Rey, A., Montoya, G.

(2024) Mol Cell 84: 2185

Released	2024-06-05
Method	ELECTRON MICROSCOPY 2.66 Å
Organisms	Escherichia coli BL21(DE3)
Macromolecule	Retron Ec86 putative ribosyltransferase/DNA-binding protein (protein) Retron Ec86 reverse transcriptase (protein) Retron-Eco1 msDNA (nucleic acid) Retron-Eco1-A2 (nucleic acid) Retron-Eco1-msr (nucleic acid)
Unique Ligands	MG, NAD

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8QBM \| pdb_00008qbm	Download File View File

Retron-Eco1 filament with ADP-ribosylated Effector (full map with 2 segments)

Carabias del Rey, A., Montoya, G.

(2024) Mol Cell 84: 2185

Released	2024-06-05
Method	ELECTRON MICROSCOPY 3.09 Å
Organisms	Escherichia coli BL21(DE3)
Macromolecule	Retron Ec86 putative ribosyltransferase/DNA-binding protein (protein) Retron Ec86 reverse transcriptase (protein) Retron-Eco1 msDNA (nucleic acid) Retron-Eco1-A2 (nucleic acid) Retron-Eco1-msr (nucleic acid)
Unique Ligands	AR6, MG

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8RC2 \| pdb_00008rc2	Download File View File

DNA bound type IV-A3 CRISPR effector complex from K. pneumoniae

Miksys, A., Cepaite, R., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Unique protein chains: 3 Unique nucleic acid chains: 3
Unique Ligands	ZN

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8RC3 \| pdb_00008rc3	Download File View File

DNA bound type IV-A1 CRISPR effector complex from P. oleovorans

Miksys, A., Cepaite, R., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Ectopseudomonas oleovorans
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 3
Unique Ligands	ZN

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8RFJ \| pdb_00008rfj	Download File View File

DNA bound type IV-A1 CRISPR effector complex with the DinG helicase from P. oleovorans

Miksys, A., Cepaite, R., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 3.18 Å
Organisms	Ectopseudomonas oleovorans
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 3
Unique Ligands	ZN

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8S35 \| pdb_00008s35	Download File View File

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state I)

Skorupskaite, A., Ragozius, V., Cepaite, R., Klein, N., Randau, L., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 3
Unique Ligands	ZN

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8S36 \| pdb_00008s36	Download File View File

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state II)

Skorupskaite, A., Ragozius, V., Cepaite, R., Klein, N., Randau, L., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 3
Unique Ligands	ZN

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8S37 \| pdb_00008s37	Download File View File

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state III)

Skorupskaite, A., Ragozius, V., Cepaite, R., Klein, N., Randau, L., Malinauskaite, L., Pausch, P.

(2024) Nat Commun 15: 9306-9306

Released	2024-11-06
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Klebsiella pneumoniae
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 3
Unique Ligands	ZN

1 to 9 of 9 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

8QBK | pdb_00008qbk

Retron-Eco1 filament with ADP-ribosylated Effector (local map with 1 segment)

8QBL | pdb_00008qbl

Retron-Eco1 filament with inactive effector (E106A, 2 segments)

8QBM | pdb_00008qbm

Retron-Eco1 filament with ADP-ribosylated Effector (full map with 2 segments)

8RC2 | pdb_00008rc2

DNA bound type IV-A3 CRISPR effector complex from K. pneumoniae

8RC3 | pdb_00008rc3

DNA bound type IV-A1 CRISPR effector complex from P. oleovorans

8RFJ | pdb_00008rfj

DNA bound type IV-A1 CRISPR effector complex with the DinG helicase from P. oleovorans

8S35 | pdb_00008s35

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state I)

8S36 | pdb_00008s36

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state II)

8S37 | pdb_00008s37

DNA-bound Type IV-A3 CRISPR effector in complex with DinG helicase from K. pneumoniae (state III)

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

8QBK | pdb_00008qbk

8QBL | pdb_00008qbl

8QBM | pdb_00008qbm

8RC2 | pdb_00008rc2

8RC3 | pdb_00008rc3

8RFJ | pdb_00008rfj

8S35 | pdb_00008s35

8S36 | pdb_00008s36

8S37 | pdb_00008s37