RCSB PDB: Search

5BR8 \| pdb_00005br8	Download File View File

Ambient-temperature crystal structure of 30S ribosomal subunit from Thermus thermophilus in complex with paromomycin

Sierra, R.G., Gati, C., Laksmono, H., Dao, E.H., Gul, S., Fuller, F., Kern, J., Chatterjee, R., Ibrahim, M., Brewster, A., Young, I.D., Michels-Clark, T., Aquila, A., Mengning, L., Hunter, M.S., Koglin, J.E., Boutet, S., Junco, E.A., Hayes, B., Bogan, M.J., Hampton, C.Y., Puglisi, E.V., Sauter, N.K., Stan, C.A., Zouni, A., Yano, J., Yachandra, V.K., Soltis, S.M., Puglisi, J.D., DeMirci, H.

To be published

Released	2015-11-18
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Thermus thermophilus HB8
Macromolecule	Unique protein chains: 20 Unique nucleic acid chains: 1
Unique Ligands	MG, PAR, ZN

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5FOY \| pdb_00005foy	Download File View File

De novo structure of the binary mosquito larvicide BinAB at pH 7

Colletier, J.P., Sawaya, M.R., Gingery, M., Rodriguez, J.A., Cascio, D., Brewster, A.S., Michels-Clark, T., Boutet, S., Williams, G.J., Messerschmidt, M., DePonte, D.P., Sierra, R.G., Laksmono, H., Koglin, J.E., Hunter, M.S., W Park, H., Uervirojnangkoorn, M., Bideshi, D.L., Brunger, A.T., Federici, B.A., Sauter, N.K., Eisenberg, D.S.

(2016) Nature 539: 43

Released	2016-10-05
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	41.9 KDA INSECTICIDAL TOXIN (protein) LARVICIDAL TOXIN 51 KDA PROTEIN (protein)

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5FOZ \| pdb_00005foz	Download File View File

De novo structure of the binary mosquito larvicide BinAB at pH 10

Colletier, J.P., Sawaya, M.R., Gingery, M., Rodriguez, J.A., Cascio, D., Brewster, A.S., Michels-Clark, T., Boutet, S., Williams, G.J., Messerschmidt, M., DePonte, D.P., Sierra, R.G., Laksmono, H., Koglin, J.E., Hunter, M.S., W Park, H., Uervirojnangkoorn, M., Bideshi, D.L., Brunger, A.T., Federici, B.A., Sauter, N.K., Eisenberg, D.S.

(2016) Nature 539: 43

Released	2016-10-05
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	LARVICIDAL TOXIN PROTEIN (protein) TOXIN (protein)
Unique Ligands	NA

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5G37 \| pdb_00005g37	Download File View File

MR structure of the binary mosquito larvicide BinAB at pH 5

Colletier, J.P., Sawaya, M.R., Gingery, M., Rodriguez, J.A., Cascio, D., Brewster, A.S., Michels-Clark, T., Boutet, S., Williams, G.J., Messerschmidt, M., DePonte, D.P., Sierra, R.G., Laksmono, H., Koglin, J.E., Hunter, M.S., W Park, H., Uervirojnangkoorn, M., Bideshi, D.L., Brunger, A.T., Federici, B.A., Sauter, N.K., Eisenberg, D.S.

(2016) Nature 539: 43

Released	2016-10-05
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Lysinibacillus sphaericus
Macromolecule	41.9 KDA INSECTICIDAL TOXIN (protein) LARVICIDAL TOXIN 51 KDA PROTEIN (protein)

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5KAF \| pdb_00005kaf	Download File View File

RT XFEL structure of Photosystem II in the dark state at 3.0 A resolution

Young, I.D., Ibrahim, M., Chatterjee, R., Gul, S., Koroidov, S., Brewster, A.S., Tran, R., Alonso-Mori, R., Fuller, F., Kroll, T., Michels-Clark, T., Laksmono, H., Sierra, R.G., Stan, C.A., Saracini, C., Bean, M.A., Seuffert, I., Sokaras, D., Weng, T.-C., Hunter, M.S., Aquila, A., Koglin, J.E., Robinson, J., Liang, M., Boutet, S., Lyubimov, A.Y., Uervirojnangkoorn, M., Moriarty, N.W., Liebschner, D., Afonine, P.V., Waterman, D.G., Evans, G., Dobbek, H., Weis, W.I., Brunger, A.T., Zwart, P.H., Adams, P.D., Zouni, A., Messinger, J., Bergmann, U., Sauter, N.K., Kern, J., Yachandra, V.K., Yano, J.

(2016) Nature 540: 453-457

Released	2016-11-23
Method	X-RAY DIFFRACTION 3.00000997771 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEX, PHO, PL9, SQD, UNL

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5KAI \| pdb_00005kai	Download File View File

NH3-bound RT XFEL structure of Photosystem II 500 ms after the 2nd illumination (2F) at 2.8 A resolution

Young, I.D., Ibrahim, M., Chatterjee, R., Gul, S., Koroidov, S., Brewster, A.S., Tran, R., Alonso-Mori, R., Fuller, F., Kroll, T., Michels-Clark, T., Laksmono, H., Sierra, R.G., Stan, C.A., Saracini, C., Bean, M.A., Seuffert, I., Sokaras, D., Weng, T.-C., Hunter, M.S., Aquila, A., Koglin, J.E., Robinson, J., Liang, M., Boutet, S., Lyubimov, A.Y., Uervirojnangkoorn, M., Moriarty, N.W., Liebschner, D., Afonine, P.V., Waterman, D.G., Evans, G., Dobbek, H., Weis, W.I., Brunger, A.T., Zwart, P.H., Adams, P.D., Zouni, A., Messinger, J., Bergmann, U., Sauter, N.K., Kern, J., Yachandra, V.K., Yano, J.

(2016) Nature 540: 453-457

Released	2016-11-23
Method	X-RAY DIFFRACTION 2.80000914773 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEX, PHO, PL9, SQD, UNL

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5KJ7 \| pdb_00005kj7	Download File View File

Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (long unit cell form) - from XFEL diffraction

Lyubimov, A.Y., Uervirojnangkoorn, M., Zhou, Q., Zhao, M., Sauter, N.K., Brewster, A.S., Weis, W.I., Brunger, A.T.

(2016) Elife 5:

Released	2016-10-19
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Rattus norvegicus
Macromolecule	Synaptosomal-associated protein 25 (protein) Synaptotagmin-1 (protein) Syntaxin-1A (protein) Vesicle-associated membrane protein 3 (protein)
Unique Ligands	CA

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5KJ8 \| pdb_00005kj8	Download File View File

Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (long unit cell form) - from synchrotron diffraction

Lyubimov, A.Y., Uervirojnangkoorn, M., Zhou, Q., Zhao, M., Sauter, N.K., Brewster, A.S., Weis, W.I., Brunger, A.T.

(2016) Elife 5:

Released	2016-10-19
Method	X-RAY DIFFRACTION 4.1 Å
Organisms	Rattus norvegicus
Macromolecule	Synaptosomal-associated protein 25 (protein) Synaptotagmin-1 (protein) Syntaxin-1A (protein) Vesicle-associated membrane protein 3 (protein)
Unique Ligands	CA

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5MG0 \| pdb_00005mg0	Download File View File

Structure of PAS-GAF fragment of Deinococcus phytochrome by serial femtosecond crystallography

Burgie, E.S., Fuller, F.D., Gul, S., Miller, M.D., Young, I.D., Brewster, A.S., Clinger, J., Aller, P., Braeuer, P., Hutchison, C., Alonso-Mori, R., Kern, J., Yachandra, V.K., Yano, J., Sauter, N.K., Phillips Jr., G.N., Vierstra, R.D., Orville, A.M.

(2017) Nat Methods 14: 443-449

Released	2017-02-22
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Macromolecule	Bacteriophytochrome (protein)
Unique Ligands	CL, EDO, LBV, NI

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5MG1 \| pdb_00005mg1	Download File View File

Structure of the photosensory module of Deinococcus phytochrome by serial femtosecond X-ray crystallography

Burgie, E.S., Fuller, F.D., Gul, S., Young, I.D., Brewster, A.S., Clinger, J., Andi, B., Stan, C., Allaire, M., Nelsen, S., Alonso-Mori, R., Phillips Jr., G.N., Sauter, N.K., Kern, J., Yachandra, V.K., Yano, J., Vierstra, R.D., Orville, A.M.

(2017) Nat Methods 14: 443-449

Released	2017-02-22
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
Macromolecule	Bacteriophytochrome (protein)
Unique Ligands	LBV

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5MQW \| pdb_00005mqw	Download File View File

High-speed fixed-target serial virus crystallography

Roedig, P., Ginn, H.M., Pakendorf, T., Sutton, G., Harlos, K., Walter, T.S., Meyer, J., Fischer, P., Duman, R., Vartiainen, I., Reime, B., Warmer, M., Brewster, A.S., Young, I.D., Michels-Clark, T., Sauter, N.K., Sikorsky, M., Nelson, S., Damiani, D.S., Alonso-Mori, R., Ren, J., Fry, E.E., David, C., Stuart, D.I., Wagner, A., Meents, A.

(2017) Nat Methods 14: 805-810

Released	2017-06-21
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Operophtera brumata cypovirus 18
Macromolecule	Polyhedrin (protein)
Unique Ligands	ATP, CL, GTP, MG

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5OSN \| pdb_00005osn	Download File View File

Crystal Structure of Bovine Enterovirus 2 determined with Serial Femtosecond X-ray Crystallography

Roedig, P., Ginn, H.M., Pakendorf, T., Sutton, G., Harlos, K., Walter, T.S., Meyer, J., Fischer, P., Duman, R., Vartiainen, I., Reime, B., Warmer, M., Brewster, A.S., Young, I.D., Michels-Clark, T., Sauter, N.K., Kotecha, A., Kelly, J., Rowlands, D.J., Sikorsky, M., Nelson, S., Damiani, D.S., Alonso-Mori, R., Ren, J., Fry, E.E., David, C., Stuart, D.I., Wagner, A., Meents, A.

(2017) Nat Methods 14: 805-810

Released	2017-08-30
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Enterovirus E
Macromolecule	Capsid protein (protein)
Unique Ligands	GLU, K, OSF, SO4, SPH

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5TIS \| pdb_00005tis	Download File View File

Room temperature XFEL structure of the native, doubly-illuminated photosystem II complex

Young, I.D., Ibrahim, M., Chatterjee, R., Gul, S., Fuller, F., Koroidov, S., Brewster, A.S., Tran, R., Alonso-Mori, R., Kroll, T., Michels-Clark, T., Laksmono, H., Sierra, R.G., Stan, C.A., Hussein, R., Zhang, M., Douthit, L., Kubin, M., de Lichtenberg, C., Pham, L.V., Nilsson, H., Cheah, M.H., Shevela, D., Saracini, C., Bean, M.A., Seuffert, I., Sokaras, D., Weng, T.-C., Pastor, E., Weninger, C., Fransson, T., Lassalle, L., Braeuer, P., Aller, P., Docker, P.T., Andi, B., Orville, A.M., Glownia, J.M., Nelson, S., Sikorski, M., Zhu, D., Hunter, M.S., Aquila, A., Koglin, J.E., Robinson, J., Liang, M., Boutet, S., Lyubimov, A.Y., Uervirojnangkoorn, M., Moriarty, N.W., Liebschner, D., Afonine, P.V., Watermann, D.G., Evans, G., Wernet, P., Dobbek, H., Weis, W.I., Brunger, A.T., Zwart, P.H., Adams, P.D., Zouni, A., Messinger, J., Bergmann, U., Sauter, N.K., Kern, J., Yachandra, V.K., Yano, J.

(2016) Nature 540: 453-457

Released	2016-11-23
Method	X-RAY DIFFRACTION 2.25000371562 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEX, PHO, PL9, SQD, UNL

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6DHG \| pdb_00006dhg	Download File View File

RT XFEL structure of Photosystem II 150 microseconds after the second illumination at 2.5 Angstrom resolution

Kern, J., Chatterjee, R., Young, I.D., Fuller, F.D., Lassalle, L., Ibrahim, M., Gul, S., Fransson, T., Brewster, A.S., Alonso-Mori, R., Hussein, R., Zhang, M., Douthit, L., de Lichtenberg, C., Cheah, M.H., Shevela, D., Wersig, J., Seufert, I., Sokaras, D., Pastor, E., Weninger, C., Kroll, T., Sierra, R.G., Aller, P., Butryn, A., Orville, A.M., Liang, M., Batyuk, A., Koglin, J.E., Carbajo, S., Boutet, S., Moriarty, N.W., Holton, J.M., Dobbek, H., Adams, P.D., Bergmann, U., Sauter, N.K., Zouni, A., Messinger, J., Yano, J., Yachandra, V.K.

(2018) Nature 563: 421-425

Released	2018-11-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEX, PHO, PL9, SQD, UNL

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6DHH \| pdb_00006dhh	Download File View File

RT XFEL structure of Photosystem II 400 microseconds after the second illumination at 2.2 Angstrom resolution

Kern, J., Chatterjee, R., Young, I.D., Fuller, F.D., Lassalle, L., Ibrahim, M., Gul, S., Fransson, T., Brewster, A.S., Alonso-Mori, R., Hussein, R., Zhang, M., Douthit, L., de Lichtenberg, C., Cheah, M.H., Shevela, D., Wersig, J., Seufert, I., Sokaras, D., Pastor, E., Weninger, C., Kroll, T., Sierra, R.G., Aller, P., Butryn, A., Orville, A.M., Liang, M., Batyuk, A., Koglin, J.E., Carbajo, S., Boutet, S., Moriarty, N.W., Holton, J.M., Dobbek, H., Adams, P.D., Bergmann, U., Sauter, N.K., Zouni, A., Messinger, J., Yano, J., Yachandra, V.K.

(2018) Nature 563: 421-425

Released	2018-11-21
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEY, PHO, PL9, SQD, UNL

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6DHO \| pdb_00006dho	Download File View File

RT XFEL structure of the two-flash state of Photosystem II (2F, S3-rich) at 2.07 Angstrom resolution

Kern, J., Chatterjee, R., Young, I.D., Fuller, F.D., Lassalle, L., Ibrahim, M., Gul, S., Fransson, T., Brewster, A.S., Alonso-Mori, R., Hussein, R., Zhang, M., Douthit, L., de Lichtenberg, C., Cheah, M.H., Shevela, D., Wersig, J., Seufert, I., Sokaras, D., Pastor, E., Weninger, C., Kroll, T., Sierra, R.G., Aller, P., Butryn, A., Orville, A.M., Liang, M., Batyuk, A., Koglin, J.E., Carbajo, S., Boutet, S., Moriarty, N.W., Holton, J.M., Dobbek, H., Adams, P.D., Bergmann, U., Sauter, N.K., Zouni, A., Messinger, J., Yano, J., Yachandra, V.K.

(2018) Nature 563: 421-425

Released	2018-11-21
Method	X-RAY DIFFRACTION 2.07 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Unique protein chains: 20
Unique Ligands	BCR, BCT, CL, CLA, DGD, FE2, HEC, HEM, LHG, LMG, OEX, OEY, PHO, PL9, SQD, UNL

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8RNZ \| pdb_00008rnz	Download File View File

Metal-binding domain 3 of copper-transporting ATPase RAN1 from Arabidopsis thaliana

Minges, A., Dluhosch, D., Groth, G.

(2025) To be published

Released	2025-01-29
Method	X-RAY DIFFRACTION 1.98 Å
Organisms	Arabidopsis thaliana
Macromolecule	Copper-transporting ATPase RAN1 (protein)

5BR8 | pdb_00005br8

Ambient-temperature crystal structure of 30S ribosomal subunit from Thermus thermophilus in complex with paromomycin

5FOY | pdb_00005foy

De novo structure of the binary mosquito larvicide BinAB at pH 7

5FOZ | pdb_00005foz

De novo structure of the binary mosquito larvicide BinAB at pH 10

5G37 | pdb_00005g37

MR structure of the binary mosquito larvicide BinAB at pH 5

5KAF | pdb_00005kaf

RT XFEL structure of Photosystem II in the dark state at 3.0 A resolution

5KAI | pdb_00005kai

NH3-bound RT XFEL structure of Photosystem II 500 ms after the 2nd illumination (2F) at 2.8 A resolution

5KJ7 | pdb_00005kj7

Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (long unit cell form) - from XFEL diffraction

5KJ8 | pdb_00005kj8

Structure of the Ca2+-bound synaptotagmin-1 SNARE complex (long unit cell form) - from synchrotron diffraction

5MG0 | pdb_00005mg0

Structure of PAS-GAF fragment of Deinococcus phytochrome by serial femtosecond crystallography

5MG1 | pdb_00005mg1

Structure of the photosensory module of Deinococcus phytochrome by serial femtosecond X-ray crystallography

5MQW | pdb_00005mqw

High-speed fixed-target serial virus crystallography

5OSN | pdb_00005osn

Crystal Structure of Bovine Enterovirus 2 determined with Serial Femtosecond X-ray Crystallography

5TIS | pdb_00005tis

Room temperature XFEL structure of the native, doubly-illuminated photosystem II complex

6DHG | pdb_00006dhg

RT XFEL structure of Photosystem II 150 microseconds after the second illumination at 2.5 Angstrom resolution

6DHH | pdb_00006dhh

RT XFEL structure of Photosystem II 400 microseconds after the second illumination at 2.2 Angstrom resolution

6DHO | pdb_00006dho

RT XFEL structure of the two-flash state of Photosystem II (2F, S3-rich) at 2.07 Angstrom resolution

8RNZ | pdb_00008rnz

Metal-binding domain 3 of copper-transporting ATPase RAN1 from Arabidopsis thaliana

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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

5BR8 | pdb_00005br8

5FOY | pdb_00005foy

5FOZ | pdb_00005foz

5G37 | pdb_00005g37

5KAF | pdb_00005kaf

5KAI | pdb_00005kai

5KJ7 | pdb_00005kj7

5KJ8 | pdb_00005kj8

5MG0 | pdb_00005mg0

5MG1 | pdb_00005mg1

5MQW | pdb_00005mqw

5OSN | pdb_00005osn

5TIS | pdb_00005tis

6DHG | pdb_00006dhg

6DHH | pdb_00006dhh

6DHO | pdb_00006dho

8RNZ | pdb_00008rnz