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232,059 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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Search Summary

This query matches 128 Structures.

Refinements

Structure Determination Methodology

experimental (128)

Scientific Name of Source Organism

	Homo sapiens (69)
	Pseudo-nitzschia multiseries (14)
	Pyrococcus abyssi GE5 (12)
	synthetic construct (12)
	Bos taurus (9)
	Tequatrovirus T4 (9)
	Human immunodeficiency virus type 1 (8)
	Human immunodeficiency virus type 1 group M subtype B (isolate ARV2/SF2) (8)
	Mus musculus (6)
	Lama glama (5)

More...

Taxonomy

	Eukaryota (109)
	Riboviria (RNA viruses and viroids) (18)
	Archaea (14)
	other sequences (12)
	Duplodnaviria (10)
	Bacteria (5)
	Eukaryota (eukaryotes) (1)
	Riboviria (1)

Experimental Method

	X-RAY DIFFRACTION (127)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

Protein (128)

Refinement Resolution (Å)

	1.0 - 1.5 (8)
	1.5 - 2.0 (48)
	2.0 - 2.5 (32)
	2.5 - 3.0 (28)
	3.0 - 3.5 (11)
	3.5 - 4.0 (1)

Release Date

	2000 - 2004 (8)
	2005 - 2009 (19)
	2010 - 2014 (25)
	2015 - 2019 (43)
	2020 - 2024 (33)

Enzyme Classification Name

	Hydrolases (53)
	Oxidoreductases (16)
	Lyases (9)
	Transferases (7)
	Ligases (2)

Membrane Protein Annotation

	PDBTM (32)
	mpstruc (30)
	MemProtMD (26)
	OPM (21)

Symmetry Type

	Asymmetric (64)
	Cyclic (50)
	Octahedral (15)
	Dihedral (2)

SCOP Classification

	Alpha and beta proteins (a+b) (21)
	All alpha proteins (15)
	All beta proteins (10)
	Alpha and beta proteins (a/b) (3)
	Artifacts (4)
	Membrane and cell surface proteins and peptides (1)

AllSelected

1 to 25 of 128 Structures

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1L0Q	Download File View File

Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein

Jing, H., Takagi, J., Liu, J.-H., Lindgren, S., Zhang, R.-G., Joachimiak, A., Wang, J.-H., Springer, T.A.

(2002) Structure 10: 1453-1464

Released	2002-11-06
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Methanosarcina mazei S-6
Macromolecule	Surface layer protein (protein)

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1N1X	Download File View File

Crystal Structure Analysis of the monomeric [S-carboxyamidomethyl-Cys31, S-carboxyamidomethyl-Cys32] Bovine seminal ribonuclease

Sica, F., Di Fiore, A., Zagari, A., Mazzarella, L.

(2003) Proteins 52: 263-271

Released	2003-08-26
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Bos taurus
Macromolecule	Ribonuclease, seminal (protein)

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1N3Z	Download File View File

Crystal structure of the [S-carboxyamidomethyl-Cys31, S-carboxyamidomethyl-Cys32] monomeric derivative of the bovine seminal ribonuclease in the liganded state

Sica, F., Di Fiore, A., Zagari, A., Mazzarella, L.

(2003) Proteins 52: 263-271

Released	2003-08-26
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Bos taurus
Macromolecule	Ribonuclease, seminal (protein)
Unique Ligands	ADN, U3P

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1PX5	Download File View File

Crystal structure of the 2'-specific and double-stranded RNA-activated interferon-induced antiviral protein 2'-5'-oligoadenylate synthetase

Hartmann, R., Justesen, J., Sarkar, S.N., Sen, G.C., Yee, V.C.

(2003) Mol Cell 12: 1173-1185

Released	2003-11-25
Method	X-RAY DIFFRACTION 1.74 Å
Organisms	Sus scrofa
Macromolecule	2'-5'-oligoadenylate synthetase 1 (protein)
Unique Ligands	SO4

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1TJG	Download File View File

Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 7mer epitope

Ofek, G., Tang, M., Sambor, A., Katinger, H., Mascola, J.R., Wyatt, R., Kwong, P.D.

(2004) J Virol 78: 10724-10737

Released	2004-10-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens Human immunodeficiency virus type 1
Macromolecule	Envelope glycoprotein GP41 (protein) FAB 2F5 Heavy Chain (protein) FAB 2F5 Light Chain (protein)
Unique Ligands	EDO, IPA

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1TJH	Download File View File

Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 11mer epitope

Ofek, G., Tang, M., Sambor, A., Katinger, H., Mascola, J.R., Wyatt, R., Kwong, P.D.

(2004) J Virol 78: 10724-10737

Released	2004-10-05
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens Human immunodeficiency virus type 1 group M subtype D (isolate Z6)
Macromolecule	Envelope glycoprotein GP41 (protein) anti-HIV-1 antibody 2F5 Heavy Chain (protein) anti-HIV-1 antibody 2F5 Light Chain (protein)
Unique Ligands	EDO, IPA

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1TJI	Download File View File

Crystal Structure of the broadly neutralizing anti-HIV-1 antibody 2F5 in complex with a gp41 17mer epitope

Ofek, G., Tang, M., Sambor, A., Katinger, H., Mascola, J.R., Wyatt, R., Kwong, P.D.

(2004) J Virol 78: 10724-10737

Released	2004-10-05
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens Human immunodeficiency virus type 1 group M subtype D (isolate Z6)
Macromolecule	Envelope Glycoprotein GP41 (protein) anti-HIV-1 antibody 2F5 Heavy Chain (protein) anti-HIV-1 antibody 2F5 Light Chain (protein)
Unique Ligands	EDO, IPA

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1TQ9	Download File View File

Non-covalent swapped dimer of Bovine Seminal Ribonuclease in complex with 2'-DEOXYCYTIDINE-2'-DEOXYADENOSINE-3',5'-MONOPHOSPHATE

Sica, F., Di Fiore, A., Merlino, A., Mazzarella, L.

(2004) J Biol Chem 279: 36753-36760

Released	2004-09-14
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bos taurus
Macromolecule	Ribonuclease, seminal (protein)
Unique Ligands	CPA

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2A8P	Download File View File

2.7 Angstrom Crystal Structure of the Complex Between the Nuclear SnoRNA Decapping Nudix Hydrolase X29 and Manganese

Scarsdale, J.N., Peculis, B.A., Wright, H.T.

(2006) Structure 14: 331-343

Released	2006-03-28
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Xenopus laevis
Macromolecule	U8 snoRNA-binding protein X29 (protein)
Unique Ligands	MN

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2A8Q	Download File View File

2.6 Angstrom Crystal Structure of the Complex Between the Nuclear SnoRNA Decapping Nudix Hydrolase X29 and Manganese in the Presence of 7-methyl-GDP

Scarsdale, J.N., Peculis, B.A., Wright, H.T.

(2006) Structure 14: 331-343

Released	2006-03-28
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Xenopus laevis
Macromolecule	U8 snoRNA-binding protein X29 (protein)
Unique Ligands	MN, POP

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2A8R	Download File View File

2.45 Angstrom Crystal Structure of the Complex Between the Nuclear SnoRNA Decapping Nudix Hydrolase X29 and Manganese in the Presence of 7-methyl-GTP

Scarsdale, J.N., Peculis, B.A., Wright, H.T.

(2006) Structure 14: 331-343

Released	2006-03-28
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Xenopus laevis
Macromolecule	U8 snoRNA-binding protein X29 (protein)
Unique Ligands	MN, POP

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2A8S	Download File View File

2.45 Angstrom Crystal Structure of the Complex Between the Nuclear SnoRNA Decapping Nudix Hydrolase X29, Manganese and GTP

Scarsdale, J.N., Peculis, B.A., Wright, H.T.

(2006) Structure 14: 331-343

Released	2006-03-28
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Xenopus laevis
Macromolecule	U8 snoRNA-binding protein X29 (protein)
Unique Ligands	GTP, MN

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2O40	Download File View File

Crystal Structure of a Chemically Synthesized 203 Amino Acid 'Covalent Dimer' HIV-1 Protease Molecule

Torbeev, V.Y., Kent, S.B.H.

(2007) Angew Chem Int Ed Engl 46: 1667-1670

Released	2006-12-19
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Human immunodeficiency virus type 1
Macromolecule	covalent dimer HIV-1 protease (protein)
Unique Ligands	2NC

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2R0W	Download File View File

PFA2 FAB complexed with Abeta1-8

Gardberg, A.S., Dealwis, C.

(2007) Proc Natl Acad Sci U S A 104: 15659-15664

Released	2007-10-16
Method	X-RAY DIFFRACTION 2.503 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Amyloid beta peptide fragment (protein) IgG2a Fab fragment heavy chain, Fd portion (protein) IgG2a Fab fragment light chain (protein)
Unique Ligands	NA

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2R0Z	Download File View File

PFA1 FAB complexed with GripI peptide fragment

Gardberg, A.S., Dealwis, C.

(2007) Proc Natl Acad Sci U S A 104: 15659-15664

Released	2007-10-16
Method	X-RAY DIFFRACTION 2.096 Å
Organisms	Mus musculus
Macromolecule	GripI peptide fragment (protein) IgG2a Fab fragment heavy chain, Fd portion (protein) IgG2a Fab fragment light chain (protein)
Unique Ligands	GOL

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2YAX	Download File View File

IODOACETAMIDE INHIBITED SULFUR OXYGENASE REDUCTASE

Veith, A., Urich, T., Seyfarth, K., Protze, J., Frazao, C., Kletzin, A.

(2011) Front Microbiol 2: 37

Released	2011-12-21
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acidianus ambivalens
Macromolecule	SULFUR OXYGENASE/REDUCTASE (protein)
Unique Ligands	FE

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3BCP	Download File View File

Crystal Structure of The Swapped non covalent form of P19A/L28Q/N67D BS-RNase

Merlino, A., Ercole, C., Picone, D., Pizzo, E., Mazzarella, L., Sica, F.

(2008) J Mol Biol 376: 427-437

Released	2008-02-12
Method	X-RAY DIFFRACTION 2.57 Å
Organisms	Bos taurus
Macromolecule	Seminal ribonuclease (protein)

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3D0L	Download File View File

Crystal structure of the HIV-1 broadly neutralizing antibody 2F5 in complex with the gp41 FP-MPER Hyb3K construct 514GIGALFLGFLGAAGS528KK-Ahx-655KNEQELLELDKWASLWN671

Bryson, S., Julien, J.P., Pai, E.F.

(2008) J Mol Biol 384: 377-392

Released	2008-10-07
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Homo sapiens
Macromolecule	2F5 heavy chain (protein) 2F5 light chain (protein) Hyb3k peptide construct (protein)
Unique Ligands	GOL, SO4

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3DCK	Download File View File

X-ray structure of D25N chemical analogue of HIV-1 protease complexed with ketomethylene isostere inhibitor

Torbeev, V.Y., Mandal, K., Terechko, V.A., Kent, S.B.H.

(2008) Bioorg Med Chem Lett 18: 4554-4557

Released	2008-08-19
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Human immunodeficiency virus type 1
Macromolecule	Chemical analogue HIV-1 protease (protein)
Unique Ligands	KVI

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3DCR	Download File View File

X-ray structure of HIV-1 protease and hydrated form of ketomethylene isostere inhibitor

Torbeev, V.Y., Mandal, K., Terechko, V.A., Kent, S.B.H.

(2008) Bioorg Med Chem Lett 18: 4554-4557

Released	2008-08-19
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Human immunodeficiency virus type 1
Macromolecule	Chemical analogue HIV-1 protease (protein)
Unique Ligands	KVS

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3ESW	Download File View File

Complex of yeast PNGase with GlcNAc2-IAc.

Zhao, G., Zhou, X., Lennarz, W.J., Schindelin, H.

(2009) Glycobiology 19: 118-125

Released	2008-11-11
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase (protein) UV excision repair protein RAD23 (protein)
Unique Ligands	ZN
Unique branched monosaccharides	NAG

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3EYS	Download File View File

PFA1 Fab fragment complexed with pyro-Glu3-A-Beta (3-8)

Gardberg, A.S., Dealwis, C.G.

(2009) Biochemistry 48: 5210-5217

Released	2009-05-12
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Mus musculus
Macromolecule	If kappa light chain (protein) PFA1 Fab Heavy Chain (protein) pyro-Glu3-A-Beta (3-8) peptide (protein)
Unique Ligands	GOL

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3EYU	Download File View File

PFA1 Fab fragment complexed with Ror2(518-525)

Gardberg, A.S., Dealwis, C.G.

(2009) Biochemistry 48: 5210-5217

Released	2009-05-12
Method	X-RAY DIFFRACTION 2.71 Å
Organisms	Mus musculus
Macromolecule	If kappa light chain (protein) PFA1 Fab Heavy Chain (protein) ROR2(518-525) peptide (protein)

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3FKZ	Download File View File

X-ray structure of the non covalent swapped form of the S16G/T17N/A19P/A20S/K31C/S32C mutant of bovine pancreatic ribonuclease

Merlino, A., Russo Krauss, I., Perillo, M., Mattia, C.A., Ercole, C., Picone, D., Vergara, A., Sica, F.

(2009) Biopolymers 91: 1029-1037

Released	2009-03-24
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Bos taurus
Macromolecule	Ribonuclease pancreatic (protein)

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3FL0	Download File View File

X-ray structure of the non covalent swapped form of the Q28L/K31C/S32C mutant of bovine pancreatic ribonuclease in complex with 2'-DEOXYCYTIDINE-2'-DEOXYGUANOSINE-3',5'-MONOPHOSPHATE

Merlino, A., Russo Krauss, I., Perillo, M., Mattia, C.A., Ercole, C., Picone, D., Vergara, A., Sica, F.

(2009) Biopolymers 91: 1029-1037

Released	2009-03-24
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Bos taurus
Macromolecule	Ribonuclease pancreatic (protein)
Unique Ligands	CGP

1 to 25 of 128 Structures

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