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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Oberthuer, D."

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Search Summary

This query matches 144 Structures.

Refinements

Structure Determination Methodology

experimental (144)

Scientific Name of Source Organism

	Severe acute respiratory syndrome coronavirus 2 (44)
	Klebsiella pneumoniae (26)
	Gallus gallus (17)
	synthetic construct (14)
	Methanosarcina mazei Go1 (11)
	Mycobacterium tuberculosis H37Rv (10)
	Halorhodospira halophila (7)
	Fusarium haematococcum (4)
	Thermosynechococcus vestitus BP-1 (4)
	Halobacterium salinarum NRC-1 (3)

More...

Taxonomy

	Bacteria (55)
	Riboviria (44)
	Eukaryota (31)
	Archaea (14)
	other sequences (14)
	Viruses incertae sedis (3)

Experimental Method

X-RAY DIFFRACTION (144)

Polymer Entity Type

	Protein (141)
	DNA (11)
	RNA (3)

Refinement Resolution (Å)

	1.0 - 1.5 (10)
	1.5 - 2.0 (85)
	2.0 - 2.5 (38)
	2.5 - 3.0 (8)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)

Release Date

	2010 - 2014 (3)
	2015 - 2019 (48)
	2020 - 2024 (92)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (93)
	Transferases (12)
	Lyases (11)
	Oxidoreductases (2)

Membrane Protein Annotation

	MemProtMD (5)
	PDBTM (5)
	mpstruc (4)
	OPM (2)

Symmetry Type

	Asymmetric (92)
	Cyclic (40)
	Dihedral (6)
	Tetrahedral (3)

SCOP Classification

	All beta proteins (31)
	Alpha and beta proteins (a+b) (21)
	All alpha proteins (5)
	Membrane and cell surface proteins and peptides (3)
	Small proteins (1)
	Alpha and beta proteins (a/b) (2)

AllSelected

1 to 25 of 144 Structures

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3T62 \| pdb_00003t62	Download File View File

Crystal structure of recombinant Kunitz Type serine protease Inhibitor-1 from the Caribbean Sea anemone Stichodactyla helianthus in complex with bovine chymotrypsin

Garcia-Fernandez, R., Dominguez, R., Oberthuer, D., Pons, T., Gonzalez-Gonzalez, Y., Chavez, M.A., Betzel, C., Redecke, L.

To be published

Released	2012-08-01
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bos taurus Stichodactyla helianthus
Macromolecule	Chymotrypsinogen A (protein) Kunitz-type proteinase inhibitor SHPI-1 (protein)
Unique Ligands	SO4

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4RWA \| pdb_00004rwa	Download File View File

Synchrotron structure of the human delta opioid receptor in complex with a bifunctional peptide (PSI community target)

Fenalti, G., Zatsepin, N.A., Betti, C., Giguere, P., Han, G.W., Ishchenko, A., Liu, W., Guillemyn, K., Zhang, H., James, D., Wang, D., Weierstall, U., Spence, J.C.H., Boutet, S., Messerschmidt, M., Williams, G.J., Gati, C., Yefanov, O.M., White, T.A., Oberthuer, D., Metz, M., Yoon, C.H., Barty, A., Chapman, H.N., Basu, S., Coe, J., Conrad, C.E., Fromme, R., Fromme, P., Tourwe, D., Schiller, P.W., Roth, B.L., Ballet, S., Katritch, V., Stevens, R.C., Cherezov, V., GPCR Network (GPCR)

(2015) Nat Struct Mol Biol 22: 265-268

Released	2015-01-14
Method	X-RAY DIFFRACTION 3.28 Å
Organisms	Escherichia coli Homo sapiens synthetic construct
Macromolecule	Soluble cytochrome b562,Delta-type opioid receptor (protein) bifunctional peptide (protein)
Unique Ligands	OLC

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4RWD \| pdb_00004rwd	Download File View File

XFEL structure of the human delta opioid receptor in complex with a bifunctional peptide

(2015) Nat Struct Mol Biol 22: 265-268

Released	2015-01-14
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli Homo sapiens synthetic construct
Macromolecule	Soluble cytochrome b562,Delta-type opioid receptor (protein) bifunctional peptide (protein)
Unique Ligands	NA, OLA, OLC

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4WL9 \| pdb_00004wl9	Download File View File

Time Resolved Serial Femtosecond Crystallography Captures High Resolution Intermediates of PYP

Tenboer, J., Schmidt, M.

(2014) Science 346: 1242-1246

Released	2014-12-17
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)
Unique Ligands	HC4

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4WLA \| pdb_00004wla	Download File View File

Time Resolved Serial Femtosecond Crystallography Captures High Resolution Intermediates of PYP

Tenboer, J., Schmidt, M.

(2014) Science 346: 1242-1246

Released	2014-12-17
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)
Unique Ligands	HC4

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4X31 \| pdb_00004x31	Download File View File

Room temperature structure of bacteriorhodopsin from lipidic cubic phase obtained with serial millisecond crystallography using synchrotron radiation

Nogly, P., James, D., Wang, D., White, T., Zatsepin, N., Shilova, A., Nelson, G., Liu, H., Johansson, L., Heymann, M., Jaeger, K., Metz, M., Wickstrand, C., Wu, W., Baath, P., Berntsen, P., Oberthuer, D., Panneels, V., Cherezov, V., Chapman, H., Spence, J., Schertler, G., Neutze, R., Moraes, I., Burghammer, M., Standfuss, J., Weierstall, U.

(2015) IUCrJ 2: 168-176

Released	2015-02-18
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Halobacterium salinarum NRC-1
Macromolecule	Bacteriorhodopsin (protein)
Unique Ligands	LI1, RET

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4X32 \| pdb_00004x32	Download File View File

Bacteriorhodopsin ground state structure collected in cryo conditions from crystals obtained in LCP with PEG as a precipitant.

Nogly, P., Standfuss, J.

(2015) IUCrJ 2: 168-176

Released	2015-02-18
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Halobacterium salinarum NRC-1
Macromolecule	Bacteriorhodopsin (protein)
Unique Ligands	LI1, RET

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5E54 \| pdb_00005e54	Download File View File

Two apo structures of the adenine riboswitch aptamer domain determined using an X-ray free electron laser

Stagno, J.R., Wang, Y.-X., Liu, Y., Bhandari, Y.R., Conrad, C.E., Nelson, G., Li, C., Wendel, D.R., White, T.A., Barty, A., Tuckey, R.A., Zatsepin, N.A., Grant, T.D., Fromme, P., Tan, K., Ji, X., Spence, J.C.H.

(2017) Nature 541: 242-246

Released	2016-11-23
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Vibrio vulnificus
Macromolecule	Vibrio vulnificus strain 93U204 chromosome II, adenine riboswitch aptamer domain (nucleic acid)
Unique Ligands	MG

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5G0Z \| pdb_00005g0z	Download File View File

Structure of native granulovirus polyhedrin determined using an X-ray free-electron laser

Gati, C., Bunker, R.D., Oberthur, D., Metcalf, P., Henry, C.

(2017) Proc Natl Acad Sci U S A 114: 2247-2252

Released	2017-02-22
Method	X-RAY DIFFRACTION 2.001 Å
Organisms	Cydia pomonella granulovirus
Macromolecule	GRANULIN (protein)

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5G3X \| pdb_00005g3x	Download File View File

Structure of recombinant granulovirus polyhedrin

Bunker, R.D., Chiu, E., Metcalf, P.

(2017) Proc Natl Acad Sci U S A 114: 2247-2252

Released	2017-02-22
Method	X-RAY DIFFRACTION 1.66 Å
Organisms	Cydia pomonella granulovirus
Macromolecule	GRANULOVIRUS POLYHEDRIN (protein)

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5HD3 \| pdb_00005hd3	Download File View File

Femtosecond Structural Dynamics Drives the Trans/Cis Isomerization in Photoactive Yellow Protein: Dark structure of photoactive yellow protein

Pande, K., Tenboer, J., Schmidt, M.

(2016) Science 352: 725-729

Released	2016-05-18
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)

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5HD5 \| pdb_00005hd5	Download File View File

Femtosecond Structural Dynamics Drives the Trans/Cis Isomerization in Photoactive Yellow Protein: 200 ns time delay photo-activated (light) structure

Pande, K., Tenboer, J., Schmidt, M.

(2016) Science 352: 725-729

Released	2016-05-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)

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5HDC \| pdb_00005hdc	Download File View File

Femtosecond Structural Dynamics Drives the Trans/Cis Isomerization in Photoactive Yellow Protein: 100 fs to 400 fs Structure

Pande, K., Tenboer, J., Schmidt, M.

(2016) Science 352: 725-729

Released	2016-05-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)

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5HDD \| pdb_00005hdd	Download File View File

Femtosecond Structural Dynamics Drives the Trans/Cis Isomerization in Photoactive Yellow Protein: 800 fs to 1200 fs Structure

Pande, K., Tenboer, J., Schmidt, M.

(2016) Science 352: 725-729

Released	2016-05-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)

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5HDS \| pdb_00005hds	Download File View File

Femtosecond Structural Dynamics Drives the Trans/Cis Isomerization in Photoactive Yellow Protein: 3 ps Structure

Pande, K., Tenboer, J., Schmidt, M.

(2016) Science 352: 725-729

Released	2016-05-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Halorhodospira halophila
Macromolecule	Photoactive yellow protein (protein)

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5J7A \| pdb_00005j7a	Download File View File

Bacteriorhodopsin ground state structure obtained with Serial Femtosecond Crystallography

Nogly, P., Panneels, V., Nelson, G., Gati, C., Kimura, T., Milne, C., Milathianaki, D., Kubo, M., Wu, W., Conrad, C., Coe, J., Bean, R., Zhao, Y., Bath, P., Dods, R., Harimoorthy, R., Beyerlein, K.R., Rheinberger, J., James, D., DePonte, D., Li, C., Sala, L., Williams, G., Hunter, M., Koglin, J.E., Berntsen, P., Nango, E., Iwata, S., Chapman, H.N., Fromme, P., Frank, M., Abela, R., Boutet, S., Barty, A., White, T.A., Weierstall, U., Spence, J., Neutze, R., Schertler, G., Standfuss, J.

(2016) Nat Commun 7: 12314-12314

Released	2016-08-31
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Halobacterium salinarum NRC-1
Macromolecule	Bacteriorhodopsin (protein)
Unique Ligands	LI1, RET

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5MJG \| pdb_00005mjg	Download File View File

Single-shot pink beam serial crystallography: Thaumatin

Meents, A., Oberthuer, D., Lieske, J., Srajer, V.

To be published

Released	2017-12-20
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Thaumatococcus daniellii
Macromolecule	Thaumatin-1 (protein)
Unique Ligands	NA, SRT

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5MJJ \| pdb_00005mjj	Download File View File

Single-shot pink beam serial crystallography: Lysozyme

Meents, A., Oberthuer, D., Lieske, J., Srajer, V.

To be published

Released	2017-12-20
Method	X-RAY DIFFRACTION 1.75009201311 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA

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5MJL \| pdb_00005mjl	Download File View File

Single-shot pink beam serial crystallography: Proteinase K

Meents, A., Oberthuer, D., Lieske, J., Srajer, V.

(2017) Nat Commun 8: 1281-1281

Released	2017-11-15
Method	X-RAY DIFFRACTION 2.21013789926 Å
Organisms	Parengyodontium album
Macromolecule	Proteinase K (protein)
Unique Ligands	CA, CL, EPE, NHE

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5MJM \| pdb_00005mjm	Download File View File

Single-shot pink beam serial crystallography: Phycocyanin (Five chips merged)

Meents, A., Oberthuer, D., Lieske, J., Srajer, V., Sarrou, I.

(2017) Nat Commun 8: 1281-1281

Released	2017-11-15
Method	X-RAY DIFFRACTION 2.302 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	C-phycocyanin alpha chain (protein) C-phycocyanin beta chain (protein)
Unique Ligands	CYC

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5MJP \| pdb_00005mjp	Download File View File

Multi-bunch pink beam serial crystallography: Phycocyanin (One chip)

Meents, A., Oberthuer, D., Lieske, J., Srajer, V., Sarrou, I.

(2017) Nat Commun 8: 1281-1281

Released	2017-11-15
Method	X-RAY DIFFRACTION 2.11 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	C-phycocyanin alpha chain (protein) C-phycocyanin beta chain (protein)
Unique Ligands	CYC

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5MJQ \| pdb_00005mjq	Download File View File

Single-shot pink beam serial crystallography: Phycocyanin (One chip)

Meents, A., Oberthuer, D., Lieske, J., Srajer, V., Sarrou, I.

(2017) Nat Commun 8: 1281-1281

Released	2017-11-15
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	C-phycocyanin alpha chain (protein) C-phycocyanin beta chain (protein)
Unique Ligands	CYC

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5MND \| pdb_00005mnd	Download File View File

SFX structure of Cydia pomonella granulovirus using a double flow-focusing nozzle

Oberthuer, D., Chapman, H., Doerner, K., Xavier, P.L.

(2017) Sci Rep 7: 44628-44628

Released	2017-03-29
Method	X-RAY DIFFRACTION 2.56 Å
Organisms	Cydia pomonella granulosis virus (isolate Mexican)
Macromolecule	Granulin (protein)

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5NJP \| pdb_00005njp	Download File View File

Mix-and-diffuse serial synchrotron crystallography: structure of N,N',N''-Triacetylchitotriose bound to Lysozyme with 1s time-delay, phased with 1HEW

Oberthuer, D., Meents, A., Beyerlein, K.R., Chapman, H.N., Lieseke, J.

(2017) IUCrJ 4: 769-777

Released	2017-10-18
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA
Unique branched monosaccharides	NAG

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5NJQ \| pdb_00005njq	Download File View File

Mix-and-diffuse serial synchrotron crystallography: structure of N,N',N''-Triacetylchitotriose bound to Lysozyme with 1s time-delay, phased with 4ET8

Oberthuer, D., Meents, A., Beyerlein, K.R., Chapman, H.N., Lieseke, J.

(2017) IUCrJ 4: 769-777

Released	2017-10-18
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Gallus gallus
Macromolecule	Lysozyme C (protein)
Unique Ligands	CL, NA
Unique branched monosaccharides	NAG

1 to 25 of 144 Structures

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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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

3T62 | pdb_00003t62

4RWA | pdb_00004rwa

4RWD | pdb_00004rwd

4WL9 | pdb_00004wl9

4WLA | pdb_00004wla

4X31 | pdb_00004x31

4X32 | pdb_00004x32

5E54 | pdb_00005e54

5G0Z | pdb_00005g0z

5G3X | pdb_00005g3x

5HD3 | pdb_00005hd3

5HD5 | pdb_00005hd5

5HDC | pdb_00005hdc

5HDD | pdb_00005hdd

5HDS | pdb_00005hds

5J7A | pdb_00005j7a

5MJG | pdb_00005mjg

5MJJ | pdb_00005mjj

5MJL | pdb_00005mjl

5MJM | pdb_00005mjm

5MJP | pdb_00005mjp

5MJQ | pdb_00005mjq

5MND | pdb_00005mnd

5NJP | pdb_00005njp

5NJQ | pdb_00005njq