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234,440 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "VIRAL PROTEIN, HYDROLASE"

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Search Summary

This query matches 627 Structures.

Refinements

Structure Determination Methodology

experimental (627)

Scientific Name of Source Organism

	Severe acute respiratory syndrome coronavirus 2 (498)
	Homo sapiens (94)
	Influenza A virus (A/California/04/2009(H1N1)) (22)
	Human poliovirus 1 Mahoney (12)
	Severe acute respiratory syndrome-related coronavirus (12)
	Feline immunodeficiency virus (7)
	Hepatitis C virus (isolate 1) (7)
	Mus musculus (6)
	enterovirus D68 (5)
	hepatitis C virus genotype 1a (5)

More...

Taxonomy

	Riboviria (616)
	Eukaryota (113)
	Duplodnaviria (9)
	Bacteria (3)
	other sequences (3)
	Riboviria (RNA viruses and viroids) (2)
	Archaea (1)

Experimental Method

	X-RAY DIFFRACTION (529)
	ELECTRON MICROSCOPY (96)
	SOLUTION NMR (2)

Polymer Entity Type

	Protein (627)
	RNA (1)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (215)
	1.5 - 2.0 (136)
	2.0 - 2.5 (120)
	2.5 - 3.0 (72)
	3.0 - 3.5 (51)
	3.5 - 4.0 (22)
	4.0 - 4.5 (5)
	> 4.5 (2)

Release Date

	1995 - 1999 (2)
	2000 - 2004 (11)
	2005 - 2009 (6)
	2010 - 2014 (19)
	2015 - 2019 (13)
	2020 - 2024 (538)
	2025 - 2029 (38)

Enzyme Classification Name

	Hydrolases (577)
	Transferases (23)

Membrane Protein Annotation

	mpstruc (3)
	MemProtMD (2)
	OPM (2)
	PDBTM (2)

Symmetry Type

	Asymmetric (402)
	Cyclic (223)
	Dihedral (12)

SCOP Classification

	Alpha and beta proteins (a/b) (126)
	Artifacts (136)
	All beta proteins (84)
	Alpha and beta proteins (a+b) (11)
	Multi-domain proteins (alpha and beta) (11)

AllSelected

1 to 25 of 627 Structures

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1F7D \| pdb_00001f7d	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	MG

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1F7K \| pdb_00001f7k	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	MG, UMP

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1F7N \| pdb_00001f7n	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	MG, UMP

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1F7O \| pdb_00001f7o	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)

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1F7P \| pdb_00001f7p	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	UDP

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1F7Q \| pdb_00001f7q	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.26 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	DUT

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1F7R \| pdb_00001f7r	Download File View File

CRYSTAL STRUCTURES OF FELINE IMMUNODEFICIENCY VIRUS DUTP PYROPHOSPHATASE AND ITS NUCLEOTIDE COMPLEXES IN THREE CRYSTAL FORMS.

Prasad, G.S., Stura, E.A., Elder, J.H., Stout, C.D.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1100-1109

Released	2000-09-06
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Feline immunodeficiency virus
Macromolecule	POL POLYPROTEIN (protein)
Unique Ligands	MG, UDP

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1G5B \| pdb_00001g5b	Download File View File

BACTERIOPHAGE LAMBDA SER/THR PROTEIN PHOSPHATASE

Voegtli, W.C., White, D.J., Reiter, N.J., Rusnak, F., Rosenzweig, A.C.

(2000) Biochemistry 39: 15365-15374

Released	2001-03-07
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Lambdavirus lambda
Macromolecule	SERINE/THREONINE PROTEIN PHOSPHATASE (protein)
Unique Ligands	HG, MN, SO4

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1L1N \| pdb_00001l1n	Download File View File

POLIOVIRUS 3C PROTEINASE

Mosimann, S.C., Chernaia, M.M., Sia, S., Plotch, S., James, M.N.G.

(1997) J Mol Biology 273: 1032-1047

Released	2002-04-10
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Human poliovirus 1 Mahoney
Macromolecule	Genome polyprotein: Picornain 3C (protein)

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1Q31 \| pdb_00001q31	Download File View File

Crystal Structure of the Tobacco Etch Virus Protease C151A mutant

Nunn, C.M., Djordjevic, S., George, R.R., Urquhart, G.T., Chao, L.H., Tsuchiya, Y.

(2005) J Mol Biology 350: 145-155

Released	2004-11-02
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Tobacco etch virus
Macromolecule	Nuclear inclusion protein A (protein)
Unique Ligands	BME

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1RGQ \| pdb_00001rgq	Download File View File

M9A HCV Protease complex with pentapeptide keto-amide inhibitor

Liu, Y., Stoll, V.S., Richardson, P.L., Saldivar, A., Klaus, J.L., Molla, A., Kohlbrenner, W., Kati, W.M.

(2004) Arch Biochem Biophys 421: 207-216

Released	2004-10-19
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Hepacivirus hominis
Macromolecule	NS3 Protease (protein) NS4A peptide (protein)
Unique Ligands	AKP, ZN

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1TSU \| pdb_00001tsu	Download File View File

CRYSTAL STRUCTURE OF DECAMER NCP1 SUBSTRATE PEPTIDE IN COMPLEX WITH WILD-TYPE D25N HIV-1 PROTEASE VARIANT

Prabu-Jeyabalan, M., Nalivaika, E.A., King, N.M., Schiffer, C.A.

(2004) J Virol 78: 12446-12454

Released	2005-03-29
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Human immunodeficiency virus type 1 group M subtype B (isolate ARV2/SF2) Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)
Macromolecule	NC-P1 SUBSTRATE PEPTIDE (protein) Pol polyprotein (protein)

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1WPO \| pdb_00001wpo	Download File View File

HYDROLYTIC ENZYME HUMAN CYTOMEGALOVIRUS PROTEASE

Tong, L.

(1996) Nature 383: 272-275

Released	1997-10-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Human betaherpesvirus 5
Macromolecule	HUMAN CYTOMEGALOVIRUS PROTEASE (protein)
Unique Ligands	SO4

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1WYK \| pdb_00001wyk	Download File View File

SINDBIS VIRUS CAPSID PROTEIN (114-264)

Lee, S., Kuhn, R.J., Rossmann, M.G.

(1998) Proteins 33: 311-317

Released	1998-04-29
Method	X-RAY DIFFRACTION 2 Å
Organisms	Sindbis virus
Macromolecule	SINDBIS VIRUS CAPSID PROTEIN (protein)
Unique Ligands	DIO, FOR

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2GDT \| pdb_00002gdt	Download File View File

NMR Structure of the nonstructural protein 1 (nsp1) from the SARS coronavirus

Almeida, M.S., Herrmann, T., Geralt, M., Johnson, M.A., Saikatendu, K., Joseph, J., Subramanian, R.C., Neuman, B.W., Buchmeier, M.J., Stevens, R.C., Kuhn, P., Wilson, I.A., Wuthrich, K., Joint Center for Structural Genomics (JCSG)

(2007) J Virol 81: 3151-3161

Released	2007-02-06
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Leader protein; p65 homolog; NSP1 (EC 3.4.22.-) (protein)

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2HSX \| pdb_00002hsx	Download File View File

NMR Structure of the nonstructural protein 1 (nsp1) from the SARS coronavirus

(2007) J Virol 81: 3151-3161

Released	2007-02-06
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Leader protein; p65 homolog; NSP1 (EC 3.4.22.-) (protein)

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3CKZ \| pdb_00003ckz	Download File View File

N1 Neuraminidase H274Y + Zanamivir

Colllins, P., Haire, L.F., Lin, Y.P., Liu, J., Russell, R.J., Walker, P.A., Skehel, J.J., Martin, S.R., Hay, A.J., Gamblin, S.J.

(2008) Nature 453: 1258-1261

Released	2008-05-20
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Influenza A virus (A/Viet Nam/1203/2004(H5N1))
Macromolecule	Neuraminidase (protein)
Unique Ligands	CA, ZMR

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3CL0 \| pdb_00003cl0	Download File View File

N1 Neuraminidase H274Y + oseltamivir

Collins, P., Haire, L.F., Lin, Y.P., Liu, J., Russell, R.J., Walker, P.A., Skehel, J.J., Martin, S.R., Hay, A.J., Gamblin, S.J.

(2008) Nature 453: 1258-1261

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Influenza A virus (A/Viet Nam/1203/2004(H5N1))
Macromolecule	Neuraminidase (protein)
Unique Ligands	CA, G39

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3CL2 \| pdb_00003cl2	Download File View File

N1 Neuraminidase N294S + Oseltamivir

Collins, P., Haire, L.F., Lin, Y.P., Liu, J., Russell, R.J., Walker, P.A., Skehel, J.J., Martin, S.R., Hay, A.J., Gamblin, S.J.

(2008) Nature 453: 1258-1261

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.538 Å
Organisms	Influenza A virus (A/Viet Nam/1203/2004(H5N1))
Macromolecule	Neuraminidase (protein)
Unique Ligands	G39

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3L6P \| pdb_00003l6p	Download File View File

Crystal Structure of Dengue Virus 1 NS2B/NS3 protease

Chandramouli, S., Joseph, J.S., Daudenarde, S., Gatchalian, J., Cornillez-Ty, C., Kuhn, P.

(2010) J Virol 84: 3059-3067

Released	2010-03-02
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Dengue virus 1 Nauru/West Pac/1974 Dengue virus 1 Singapore/S275/1990
Macromolecule	fusion protein of nonstructural protein 2B and nonstructural protein 3 (protein)
Unique Ligands	CD, NI, SO4

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3LKW \| pdb_00003lkw	Download File View File

Crystal Structure of Dengue Virus 1 NS2B/NS3 protease active site mutant

Chandramouli, S., Joseph, J.S., Daudenarde, S., Gatchalian, J., Cornillez-Ty, C., Kuhn, P.

(2010) J Virol 84: 3059-3067

Released	2010-03-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Dengue virus 1 Nauru/West Pac/1974 Dengue virus 1 Singapore/S275/1990
Macromolecule	fusion protein of nonstructural protein 2B and nonstructural protein 3 (protein)
Unique Ligands	CD, CL, GOL, SO4

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3MMG \| pdb_00003mmg	Download File View File

Crystal structure of tobacco vein mottling virus protease

Ping, S., Austin, B.P., Tozser, J., Waugh, D.S.

(2010) Protein Sci 19: 2240-2251

Released	2010-10-20
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Tobacco vein mottling virus
Macromolecule	Nuclear inclusion protein A (protein) Nuclear inclusion protein B fragment (protein)
Unique Ligands	FMT

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3RC6 \| pdb_00003rc6	Download File View File

Molecular mechanisms of viral and host-cell substrate recognition by HCV NS3/4A protease

Schiffer, C.A., Romano, K.P.

(2011) J Virol 85: 6106-6116

Released	2011-05-04
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	hepatitis C virus genotype 1a
Macromolecule	NS3/4A (protein)
Unique Ligands	ZN

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4NLO \| pdb_00004nlo	Download File View File

Poliovirus Polymerase - C290I Loop Mutant

Sholders, A.J., Peersen, O.B.

(2014) J Mol Biology 426: 1407-1419

Released	2014-01-22
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Human poliovirus 1 Mahoney
Macromolecule	RNA-directed RNA polymerase 3D-POL (protein)
Unique Ligands	1PE, ACY, NA

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4NLP \| pdb_00004nlp	Download File View File

Poliovirus Polymerase - C290V Loop Mutant

Sholders, A.J., Peersen, O.B.

(2014) J Mol Biology 426: 1407-1419

Released	2014-01-22
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Human poliovirus 1 Mahoney
Macromolecule	RNA-directed RNA polymerase 3D-POL (protein)
Unique Ligands	1PE, ACY, NA

1 to 25 of 627 Structures

Page 1 of 26

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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

1F7D | pdb_00001f7d

1F7K | pdb_00001f7k

1F7N | pdb_00001f7n

1F7O | pdb_00001f7o

1F7P | pdb_00001f7p

1F7Q | pdb_00001f7q

1F7R | pdb_00001f7r

1G5B | pdb_00001g5b

1L1N | pdb_00001l1n

1Q31 | pdb_00001q31

1RGQ | pdb_00001rgq

1TSU | pdb_00001tsu

1WPO | pdb_00001wpo

1WYK | pdb_00001wyk

2GDT | pdb_00002gdt

2HSX | pdb_00002hsx

3CKZ | pdb_00003ckz

3CL0 | pdb_00003cl0

3CL2 | pdb_00003cl2

3L6P | pdb_00003l6p

3LKW | pdb_00003lkw

3MMG | pdb_00003mmg

3RC6 | pdb_00003rc6

4NLO | pdb_00004nlo

4NLP | pdb_00004nlp