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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "rep"

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Search Summary

This query matches 2,440 Structures.

Refinements

Structure Determination Methodology

experimental (2,440)

Scientific Name of Source Organism

	Severe acute respiratory syndrome coronavirus 2 (2,306)
	synthetic construct (60)
	Escherichia coli (30)
	Severe acute respiratory syndrome-related coronavirus (28)
	Escherichia coli K-12 (24)
	Severe acute respiratory syndrome coronavirus (19)
	Homo sapiens (15)
	Tylonycteris bat coronavirus HKU4 (8)
	Equine arteritis virus Bucyrus (6)
	Oryctolagus cuniculus (6)

More...

Taxonomy

	Riboviria (2,394)
	other sequences (60)
	Bacteria (31)
	Eukaryota (25)
	Monodnaviria (14)
	Duplodnaviria (2)
	Riboviria (RNA viruses and viroids) (2)
	unclassified sequences (2)

Experimental Method

	X-RAY DIFFRACTION (2,322)
	ELECTRON MICROSCOPY (104)
	SOLUTION NMR (13)
	NEUTRON DIFFRACTION (7)
	ELECTRON CRYSTALLOGRAPHY (1)

Polymer Entity Type

	Protein (2,440)
	RNA (85)
	DNA (35)

Refinement Resolution (Å)

	0.5 - 1.0 (25)
	1.0 - 1.5 (640)
	1.5 - 2.0 (1,044)
	2.0 - 2.5 (488)
	2.5 - 3.0 (144)
	3.0 - 3.5 (67)
	3.5 - 4.0 (17)
	4.0 - 4.5 (2)
	> 4.5 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (6)
	2005 - 2009 (17)
	2010 - 2014 (9)
	2015 - 2019 (40)
	2020 - 2024 (2,285)
	2025 - 2029 (82)

Enzyme Classification Name

	Hydrolases (2,151)
	Transferases (187)
	Lyases (17)
	Isomerases (1)

Membrane Protein Annotation

mpstruc (1)

Symmetry Type

	Asymmetric (1,004)
	Cyclic (1,383)
	Dihedral (58)
	Helical (1)

SCOP Classification

	Alpha and beta proteins (a/b) (322)
	All beta proteins (343)
	Artifacts (305)
	Alpha and beta proteins (a+b) (70)
	Small proteins (25)
	All alpha proteins (2)

AllSelected

1 to 25 of 2,440 Structures

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1L2M \| pdb_00001l2m	Download File View File

Minimized Average Structure of the N-terminal, DNA-binding domain of the replication initiation protein from a geminivirus (Tomato yellow leaf curl virus-Sardinia)

Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., Gronenborn, A.M.

(2002) Proc Natl Acad Sci U S A 99: 10310-10315

Released	2002-09-18
Method	SOLUTION NMR
Organisms	Tomato yellow leaf curl Sardinia virus
Macromolecule	Rep protein (protein)

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1L5I \| pdb_00001l5i	Download File View File

30-CONFORMER NMR ENSEMBLE OF THE N-TERMINAL, DNA-BINDING DOMAIN OF THE REPLICATION INITIATION PROTEIN FROM A GEMINIVIRUS (TOMATO YELLOW LEAF CURL VIRUS-SARDINIA)

Campos-Olivas, R., Louis, J.M., Clerot, D., Gronenborn, B., Gronenborn, A.M.

(2002) Proc Natl Acad Sci U S A 99: 10310-10315

Released	2002-09-18
Method	SOLUTION NMR
Organisms	Tomato yellow leaf curl Sardinia virus
Macromolecule	Rep protein (protein)

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1RZ9 \| pdb_00001rz9	Download File View File

Crystal Structure of AAV Rep complexed with the Rep-binding sequence

Hickman, A.B., Ronning, D.R., Perez, Z.N., Kotin, R.M., Dyda, F.

(2004) Mol Cell 13: 403-414

Released	2004-02-17
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	adeno-associated virus 5
Macromolecule	Rep protein (protein) 26-MER (nucleic acid)

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1S9H \| pdb_00001s9h	Download File View File

Crystal Structure of Adeno-associated virus Type 2 Rep40

James, J.A., Escalante, C.R., Yoon-Robarts, M., Edwards, T.A., Linden, R.M., Aggarwal, A.K.

(2003) Structure 11: 1025-1035

Released	2004-05-25
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	adeno-associated virus 2
Macromolecule	Rep 40 protein (protein)

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1U0J \| pdb_00001u0j	Download File View File

Crystal Structure of AAV2 Rep40-ADP complex

James, J.A., Aggarwal, A.K., Linden, R.M., Escalante, C.R.

(2004) Proc Natl Acad Sci U S A 101: 12455-12460

Released	2004-08-24
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	adeno-associated virus 2
Macromolecule	DNA replication protein (protein)
Unique Ligands	ADP

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1UAA \| pdb_00001uaa	Download File View File

E. COLI REP HELICASE/DNA COMPLEX

Korolev, S., Waksman, G.

(1997) Cell 90: 635-647

Released	1998-07-09
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli Escherichia coli (strain K12)
Macromolecule	PROTEIN (ATP-DEPENDENT DNA HELICASE REP.) (protein) DNA (5'-D(TPTPTPTPTPTPTPTPTPTPTPTPTPTPTPT)-3') (nucleic acid)

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1UK4 \| pdb_00001uk4	Download File View File

Crystal structure of SARS Coronavirus Main Proteinase (3CLpro) Complexed With An Inhibitor

Yang, H., Yang, M., Liu, Y., Bartlam, M., Ding, Y., Lou, Z., Sun, L., Zhou, Z., Ye, S., Anand, K., Pang, H., Gao, G.F., Hilgenfeld, R., Rao, Z.

(2003) Proc Natl Acad Sci U S A 100: 13190-13195

Released	2003-11-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Severe acute respiratory syndrome-related coronavirus synthetic construct
Macromolecule	3C-like proteinase nsp5 (protein) 5-mer peptide of inhibitor (protein)

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2HW0 \| pdb_00002hw0	Download File View File

NMR Solution Structure of the nuclease domain from the Replicator Initiator Protein from porcine circovirus PCV2

Vega-Rocha, S., Byeon, I.L., Gronenborn, B., Gronenborn, A.M., Campos-Olivas, R.

(2007) J Mol Biology 367: 473-487

Released	2007-06-12
Method	SOLUTION NMR
Organisms	Porcine circovirus 2
Macromolecule	Replicase (protein)

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2JZD \| pdb_00002jzd	Download File View File

NMR structure of the domain 527-651 of the SARS-CoV nonstructural protein nsp3

Chatterjee, A., Johnson, M.A., Serrano, P., Pedrini, B., Joseph, J., Saikatendu, K., Neuman, B., Stevens, R.C., Wilson, I.A., Buchmeier, M.J., Kuhn, P., Wuthrich, K., Joint Center for Structural Genomics (JCSG)

(2009) J Virol 83: 1823-1836

Released	2008-02-05
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

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2JZE \| pdb_00002jze	Download File View File

NMR structure of the domain 527-651 of the SARS-CoV nonstructural protein nsp3, single conformer closest to the mean coordinates of an ensemble of twenty energy minimized conformers

(2009) J Virol 83: 1823-1836

Released	2008-02-05
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

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2JZF \| pdb_00002jzf	Download File View File

NMR Conformer closest to the mean coordinates of the domain 513-651 of the SARS-CoV nonstructural protein nsp3

(2009) J Virol 83: 1823-1836

Released	2008-02-05
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

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2L8K \| pdb_00002l8k	Download File View File

NMR Structure of the Arterivirus nonstructural protein 7 alpha (nsp7 alpha)

Conte, M.R., Gaudin, C., Manolaridis, I., Tucker, P.W., Kelly, G.

(2011) J Virol 85: 7449-7453

Released	2011-07-06
Method	SOLUTION NMR
Organisms	Equine arteritis virus Bucyrus
Macromolecule	Non-structural protein 7 (protein)

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2PWX \| pdb_00002pwx	Download File View File

Crystal structure of G11A mutant of SARS-CoV 3C-like protease

Chen, S., Hu, T., Jiang, H., Shen, X.

(2008) J Biological Chem 283: 554-564

Released	2007-10-30
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	SARS coronavirus BJ01
Macromolecule	3C-like proteinase (protein)

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2Q6G \| pdb_00002q6g	Download File View File

Crystal structure of SARS-CoV main protease H41A mutant in complex with an N-terminal substrate

Xue, X.Y., Yang, H.T., Xue, F., Bartlam, M., Rao, Z.H.

(2008) J Virol 82: 2515-2527

Released	2008-02-12
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	SARS coronavirus BJ01 Severe acute respiratory syndrome coronavirus
Macromolecule	Polypeptide chain (protein) severe acute respiratory syndrome coronavirus (SARS-CoV) (protein)

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2QC2 \| pdb_00002qc2	Download File View File

Crystal structure of Severe Acute Respiratory Syndrome (SARS) 3C-like protease Asn214Ala mutant

Shi, J.H.

To be published

Released	2008-07-01
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Severe acute respiratory syndrome coronavirus
Macromolecule	3C-like proteinase (protein)

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2QCY \| pdb_00002qcy	Download File View File

Crystal Structure of a monomeric form of Severe Acute Respiratory Syndrome (SARS) 3C-like protease mutant

Shi, J.H., Sivaraman, J., Song, J.X.

(2008) J Virol 82: 4620-4629

Released	2008-03-11
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	3C-like proteinase (protein)

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2QIQ \| pdb_00002qiq	Download File View File

Structure-based Design and Synthesis and Biological Evaluation of Peptidomimetic SARS-3CLpro Inhibitors

Grum-Tokars, V.

(2007) Bioorg Med Chem Lett 17: 5876-5880

Released	2008-02-12
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)
Unique Ligands	CYV

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2RNK \| pdb_00002rnk	Download File View File

NMR structure of the domain 513-651 of the SARS-CoV nonstructural protein nsp3

Chatterjee, A., Johnson, M.A., Serrano, P., Pedrini, B., Joseph, J., Saikatendu, K., Neuman, B.W., Wilson, I.A., Stevens, R.C., Buchmeier, M.J., Kuhn, P., Wuthrich, K., Joint Center for Structural Genomics (JCSG)

(2009) J Virol 83: 1823-1836

Released	2008-02-05
Method	SOLUTION NMR
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

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2Z3C \| pdb_00002z3c	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Severe acute respiratory syndrome-related coronavirus synthetic construct
Macromolecule	Replicase polyprotein 1ab (pp1ab) (protein) inhibitor (protein)
Unique Ligands	GOL

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2Z3D \| pdb_00002z3d	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Inhibitor (protein) Replicase polyprotein 1ab (pp1ab) (protein)
Unique Ligands	GOL

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2Z3E \| pdb_00002z3e	Download File View File

A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase

Yin, J.

(2007) J Mol Biology 371: 1060-1074

Released	2007-07-03
Method	X-RAY DIFFRACTION 2.32 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	ACE VAL Z3E LEU KCQ peptide (protein) Replicase polyprotein 1ab (pp1ab) (protein)
Unique Ligands	GOL

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3D23 \| pdb_00003d23	Download File View File

Main protease of HCoV-HKU1

Zhao, Q., Chen, C., Li, S., Zou, Y.

(2008) J Virol 82: 8647-8655

Released	2008-09-16
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Human coronavirus HKU1 (isolate N1) synthetic construct
Macromolecule	3C-like proteinase (protein) N-[(5-METHYLISOXAZOL-3-YL)CARBONYL]ALANYL-L-VALYL-N~1~-((1R,2Z)-4-(BENZYLOXY)-4-OXO-1-{[(3R)-2-OXOPYRROLIDIN-3-YL]METHYL}BUT-2-ENYL)-L-LEUCINAMIDE (protein)

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3D62 \| pdb_00003d62	Download File View File

Development of Broad-Spectrum Halomethyl Ketone Inhibitors Against Coronavirus Main Protease 3CLpro

Bacha, U., Barrila, J., Gabelli, S.B., Kiso, Y., Amzel, L.M., Freire, E.

(2008) Chem Biol Drug Des 72: 34-49

Released	2008-07-01
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	3C-like proteinase (protein)
Unique Ligands	959

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3EBN \| pdb_00003ebn	Download File View File

A Special Dimerization of SARS-CoV Main Protease C-Terminal Domain Due to Domain-swapping

Zhong, N., Zhang, S., Xue, F., Kang, X., Lou, Z., Xia, B.

(2009) Protein Sci 18: 839-844

Released	2009-05-19
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Severe acute respiratory syndrome-related coronavirus
Macromolecule	Replicase polyprotein 1ab (protein)

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3EKE \| pdb_00003eke	Download File View File

Crystal structure of IBV X-domain at pH 5.6

Piotrowski, Y., Hansen, G., Hilgenfeld, R.

(2009) Protein Sci 18: 6-16

Released	2008-09-30
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Avian infectious bronchitis virus (strain Beaudette)
Macromolecule	Non-structural protein 3 (protein)
Unique Ligands	TLA

1 to 25 of 2,440 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

1L2M | pdb_00001l2m

1L5I | pdb_00001l5i

1RZ9 | pdb_00001rz9

1S9H | pdb_00001s9h

1U0J | pdb_00001u0j

1UAA | pdb_00001uaa

1UK4 | pdb_00001uk4

2HW0 | pdb_00002hw0

2JZD | pdb_00002jzd

2JZE | pdb_00002jze

2JZF | pdb_00002jzf

2L8K | pdb_00002l8k

2PWX | pdb_00002pwx

2Q6G | pdb_00002q6g

2QC2 | pdb_00002qc2

2QCY | pdb_00002qcy

2QIQ | pdb_00002qiq

2RNK | pdb_00002rnk

2Z3C | pdb_00002z3c

2Z3D | pdb_00002z3d

2Z3E | pdb_00002z3e

3D23 | pdb_00003d23

3D62 | pdb_00003d62

3EBN | pdb_00003ebn

3EKE | pdb_00003eke