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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Davies, J."

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Search Summary

This query matches 45 Structures.

Refinements

Structure Determination Methodology

experimental (45)

Scientific Name of Source Organism

	Homo sapiens (28)
	Mus musculus (12)
	Influenza A virus (5)
	Influenza B virus (5)
	Severe acute respiratory syndrome coronavirus 2 (4)
	Streptomyces verticillus (3)
	Bos taurus (1)
	Human immunodeficiency virus (1)
	Human immunodeficiency virus 1 (1)
	Pasteurella multocida (1)

More...

Taxonomy

	Eukaryota (41)
	Riboviria (16)
	Bacteria (5)

Experimental Method

	X-RAY DIFFRACTION (43)
	ELECTRON MICROSCOPY (1)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (45)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (15)
	2.0 - 2.5 (16)
	2.5 - 3.0 (9)
	3.0 - 3.5 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (3)
	2015 - 2019 (4)
	2020 - 2024 (37)

Enzyme Classification Name

	Hydrolases (20)
	Lyases (13)
	Translocases (1)
	Oxidoreductases (1)

Membrane Protein Annotation

	MemProtMD (1)
	PDBTM (1)

Symmetry Type

	Asymmetric (34)
	Cyclic (10)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (9)
	All beta proteins (4)
	Artifacts (4)
	All alpha proteins (1)

AllSelected

1 to 25 of 45 Structures

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1JIE \| pdb_00001jie	Download File View File

Crystal structure of bleomycin-binding protein from bleomycin-producing Streptomyces verticillus complexed with metal-free bleomycin

Sugiyama, M., Kumagai, T., Hayashida, M., Maruyama, M., Matoba, Y.

(2002) J Biological Chem 277: 2311-2320

Released	2002-02-06
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Streptomyces verticillus
Macromolecule	bleomycin-binding protein (protein)
Unique Ligands	BLM

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1JIF \| pdb_00001jif	Download File View File

Crystal structure of bleomycin-binding protein from bleomycin-producing Streptomyces verticillus complexed with copper(II)-bleomycin

Sugiyama, M., Kumagai, T., Hayashida, M., Maruyama, M., Matoba, Y.

(2002) J Biological Chem 277: 2311-2320

Released	2002-02-06
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Streptomyces verticillus
Macromolecule	bleomycin-binding protein (protein)
Unique Ligands	BLM, CL, CU

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1QTO \| pdb_00001qto	Download File View File

1.5 A CRYSTAL STRUCTURE OF A BLEOMYCIN RESISTANCE DETERMINANT FROM BLEOMYCIN-PRODUCING STREPTOMYCES VERTICILLUS

Kawano, Y., Kumagai, T., Muta, K., Matoba, Y., Davies, J., Sugiyama, M.

(2000) J Mol Biology 295: 915-925

Released	2000-06-28
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Streptomyces verticillus
Macromolecule	BLEOMYCIN-BINDING PROTEIN (protein)

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1VHP \| pdb_00001vhp	Download File View File

VH-P8, NMR

Riechmann, L.

(1996) J Mol Biology 259: 957-969

Released	1996-11-08
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	VH-P8 (protein)

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4YV8 \| pdb_00004yv8	Download File View File

Crystal structure of cathepsin K bound to the covalent inhibitor lichostatinal

Aguda, A.H., Nguyen, N.T., Bromme, D., Brayer, G.D.

(2016) J Nat Prod 79: 1962-1970

Released	2016-05-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens actinomycete 095-35
Macromolecule	Cathepsin K (protein) Lichostatinal (protein)
Unique Ligands	SO4

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4YVA \| pdb_00004yva	Download File View File

Cathepsin K co-crystallized with actinomycetes extract

Aguda, A.H., Nguyen, N.T., Bromme, D., Brayer, G.D.

(2016) J Nat Prod 79: 1962-1970

Released	2016-05-04
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Cathepsin K (protein)
Unique Ligands	SO4

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6G40 \| pdb_00006g40	Download File View File

Structure of the mouse 8-oxoguanine DNA Glycosylase mOGG1 in complex with ligand TH9525

Masuyer, G., Helleday, T., Stenmark, P.

(2023) ChemMedChem 18: e202200310-e202200310

Released	2019-04-10
Method	X-RAY DIFFRACTION 2.49 Å
Organisms	Mus musculus
Macromolecule	N-glycosylase/DNA lyase (protein)
Unique Ligands	ACT, ELK, NI, PEG

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6HAW \| pdb_00006haw	Download File View File

Crystal structure of bovine cytochrome bc1 in complex with 2-pyrazolyl quinolone inhibitor WDH2G7

Amporndanai, K., Hong, W.D., O'Neill, P.M., Hasnain, S.S., Antonyuk, S.V.

(2018) ACS Med Chem Lett 9: 1205-1210

Released	2019-01-16
Method	X-RAY DIFFRACTION 3.45 Å
Organisms	Bos taurus
Macromolecule	Unique protein chains: 10
Unique Ligands	6PE, CDL, FES, FX2, HEC, HEM, LMT, PEE, PG4, PGE, PO4, PX4, PX6

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6JKU \| pdb_00006jku	Download File View File

Crystal structure of N-acetylglucosamine-6-phosphate deacetylase from Pasteurella Multocida

Manjunath, L., Bose, S., Subramanian, R.

(2020) Proteins

Released	2020-03-04
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Pasteurella multocida
Macromolecule	N-acetylglucosamine-6-phosphate deacetylase (protein)
Unique Ligands	EDO, GOL, NA, PO4, ZN

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6XQA \| pdb_00006xqa	Download File View File

Crystal Structure of HLA A*2402 in complex with TYQWVLKNL, an 9-mer epitope from Influenza B virus

Nguyen, A.T., Szeto, C., Gras, S.

(2021) Nat Commun 12: 2931-2931

Released	2021-04-14
Method	X-RAY DIFFRACTION 2.16 Å
Organisms	Homo sapiens Influenza B virus
Macromolecule	Beta-2-microglobulin (protein) MHC class I antigen (protein) PB2-549-557 peptide from Influenza B, TYQWVLKNL (protein)
Unique Ligands	MG

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7AYY \| pdb_00007ayy	Download File View File

Structure of the human 8-oxoguanine DNA Glycosylase hOGG1 in complex with activator TH10785

Masuyer, G., Davies, J.R., Stenmark, P.

(2022) Science 376: 1471-1476

Released	2022-06-01
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	N-glycosylase/DNA lyase (protein)
Unique Ligands	GOL, MES, SEQ

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7AYZ \| pdb_00007ayz	Download File View File

Structure of the mouse 8-oxoguanine DNA Glycosylase mOGG1 in complex with activator TH10785

Masuyer, G., Davies, J.R., Stenmark, P.

(2022) Science 376: 1471-1476

Released	2022-06-01
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Mus musculus
Macromolecule	N-glycosylase/DNA lyase (protein)
Unique Ligands	NI, SEQ

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7AZ0 \| pdb_00007az0	Download File View File

Structure of the mouse 8-oxoguanine DNA Glycosylase mOGG1 in complex with TH12161

Davies, J.R., Masuyer, G., Stenmark, P.

(2022) Science 376: 1471-1476

Released	2022-06-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Mus musculus
Macromolecule	N-glycosylase/DNA lyase (protein)
Unique Ligands	NI, SDW

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7B63 \| pdb_00007b63	Download File View File

Structure of NUDT15 in complex with TH7755

Rehling, D., Stenmark, P.

(2021) J Biological Chem 296: 100568-100568

Released	2021-03-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Probable 8-oxo-dGTP diphosphatase NUDT15 (protein)
Unique Ligands	MG, SYW

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7B64 \| pdb_00007b64	Download File View File

Structure of NUDT15 V18I Mutant in complex with TH7755

Rehling, D., Stenmark, P.

(2021) J Biological Chem 296: 100568-100568

Released	2021-03-24
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Homo sapiens
Macromolecule	Nucleotide triphosphate diphosphatase NUDT15 (protein)
Unique Ligands	SYW

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7B65 \| pdb_00007b65	Download File View File

Structure of NUDT15 R139C Mutant in complex with TH7755

Rehling, D., Stenmark, P.

(2021) J Biological Chem 296: 100568-100568

Released	2021-03-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Nucleotide triphosphate diphosphatase NUDT15 (protein)
Unique Ligands	SYW

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7B66 \| pdb_00007b66	Download File View File

Structure of NUDT15 R139H Mutant in complex with TH7755

Rehling, D., Stenmark, P.

(2021) J Biological Chem 296: 100568-100568

Released	2021-03-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Nucleotide triphosphate diphosphatase NUDT15 (protein)
Unique Ligands	SYW

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7B67 \| pdb_00007b67	Download File View File

Structure of NUDT15 V18_V19insGV Mutant in complex with TH7755

Rehling, D., Stenmark, P.

(2021) J Biological Chem 296: 100568-100568

Released	2021-03-24
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	Nucleotide triphosphate diphosphatase NUDT15 (protein)
Unique Ligands	MG, PO4, SYW

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7JYU \| pdb_00007jyu	Download File View File

Crystal Structure of HLA-A*2402 in complex with IYFSPIRVTF, an 10-mer epitope from Influenza B virus

Nguyen, A.T., Szeto, C., Rossjohn, J., Gras, S.

(2021) Nat Commun 12: 2931-2931

Released	2021-04-14
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Homo sapiens Influenza A virus
Macromolecule	Beta-2-microglobulin (protein) MHC class I antigen (protein) NP-164-173 peptide from influenza B, IYFSPIRVTF (protein)
Unique Ligands	MG

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7JYV \| pdb_00007jyv	Download File View File

Crystal Structure of HLA A*2402 in complex with YFSPIRVTF, an 9-mer influenza epitope

Gras, S., Nguyen, A.T., Szeto, C., Rossjohn, J.

(2021) Nat Commun 12: 2931-2931

Released	2021-04-14
Method	X-RAY DIFFRACTION 1.51 Å
Organisms	Homo sapiens Influenza B virus
Macromolecule	Beta-2-microglobulin (protein) MHC class I antigen (protein) NP peptide from influenza, YFSPIRVTF (protein)
Unique Ligands	MG

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7JYW \| pdb_00007jyw	Download File View File

Crystal Structure of HLA A*2402 in complex with TYQWIIRNW, an 9-mer influenza epitope

Gras, S., Nguyen, A.T., Szeto, C., Rossjohn, J.

(2021) Nat Commun 12: 2931-2931

Released	2021-04-14
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens Influenza A virus
Macromolecule	Beta-2-microglobulin (protein) MHC class I antigen (protein) PB2 peptide from influenza, TYQWIIRNW (protein)
Unique Ligands	CA, NA, NI

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7JYX \| pdb_00007jyx	Download File View File

Crystal Structure of HLA A*2402 in complex with TYQWIIRNWET, an 11-mer epitope from Influenza

Gras, S., Nguyen, A.T., Szeto, C., Rossjohn, J.

(2021) Nat Commun 12: 2931-2931

Released	2021-04-14
Method	X-RAY DIFFRACTION 2.95 Å
Organisms	Homo sapiens Influenza A virus
Macromolecule	Beta-2-microglobulin (protein) MHC class I antigen (protein) PB2 peptide from Influenza, TYQWIIRNWET (protein)

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7KMG \| pdb_00007kmg	Download File View File

LY-CoV555 neutralizing antibody against SARS-CoV-2

Hendle, J., Pustilnik, A., Sauder, J.M., Coleman, K.A., Boyles, J.S., Dickinson, C.D.

(2021) Sci Transl Med 13:

Released	2021-01-27
Method	X-RAY DIFFRACTION 2.16 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	LY-CoV555 Fab heavy chain (protein) LY-CoV555 Fab light chain (protein) Spike protein S1 (protein)
Unique Ligands	GOL

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7KMH \| pdb_00007kmh	Download File View File

LY-CoV488 neutralizing antibody against SARS-CoV-2

Hendle, J., Pustilnik, A., Sauder, J.M., Boyles, J.S., Dickinson, C.D., Coleman, K.A.

(2021) Sci Transl Med 13:

Released	2021-01-27
Method	X-RAY DIFFRACTION 1.72 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	LY-CoV488 Fab heavy chain (protein) LY-CoV488 Fab light chain (protein) Spike protein S1 (protein)
Unique Ligands	GOL, NAG, PRO

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7KMI \| pdb_00007kmi	Download File View File

LY-CoV481 neutralizing antibody against SARS-CoV-2

Hendle, J., Pustilnik, A., Sauder, J.M., Coleman, K.A., Boyles, J.S., Dickinson, C.D.

(2021) Sci Transl Med 13:

Released	2021-01-27
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Homo sapiens Severe acute respiratory syndrome coronavirus 2
Macromolecule	LY-CoV481 Fab heavy chain (protein) LY-CoV481 Fab light chain (protein) Spike protein S1 (protein)
Unique Ligands	GOL, NAG

1 to 25 of 45 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

1JIE | pdb_00001jie

1JIF | pdb_00001jif

1QTO | pdb_00001qto

1VHP | pdb_00001vhp

4YV8 | pdb_00004yv8

4YVA | pdb_00004yva

6G40 | pdb_00006g40

6HAW | pdb_00006haw

6JKU | pdb_00006jku

6XQA | pdb_00006xqa

7AYY | pdb_00007ayy

7AYZ | pdb_00007ayz

7AZ0 | pdb_00007az0

7B63 | pdb_00007b63

7B64 | pdb_00007b64

7B65 | pdb_00007b65

7B66 | pdb_00007b66

7B67 | pdb_00007b67

7JYU | pdb_00007jyu

7JYV | pdb_00007jyv

7JYW | pdb_00007jyw

7JYX | pdb_00007jyx

7KMG | pdb_00007kmg

7KMH | pdb_00007kmh

7KMI | pdb_00007kmi