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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "BLOOD CLOTTING/HYDROLASE INHIBITOR"

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Search Summary

This query matches 36 Structures.

Refinements

Structure Determination Methodology

experimental (36)

Scientific Name of Source Organism

	Homo sapiens (35)
	Hirudo medicinalis (28)
	Escherichia coli (3)
	Triatoma infestans (1)

Taxonomy

	Eukaryota (36)
	Eukaryota (eukaryotes) (6)
	Bacteria (3)

Experimental Method

X-RAY DIFFRACTION (36)

Polymer Entity Type

Protein (36)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (22)
	2.0 - 2.5 (8)
	2.5 - 3.0 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (15)
	2005 - 2009 (19)
	2020 - 2024 (1)

Enzyme Classification Name

Hydrolases (33)

Symmetry Type

	Asymmetric (33)
	Cyclic (4)

SCOP Classification

	All beta proteins (17)
	Multi-domain proteins (alpha and beta) (1)
	Small proteins (1)

AllSelected

1 to 25 of 36 Structures

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1C1U \| pdb_00001c1u	Download File View File

RECRUITING ZINC TO MEDIATE POTENT, SPECIFIC INHIBITION OF SERINE PROTEASES

Katz, B.A., Luong, C.

(1998) Nature 391: 608-612

Released	2000-07-26
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	ACETYL HIRUDIN (protein) ALPHA THROMBIN (protein)
Unique Ligands	BAI, NA, ZN

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1C5L \| pdb_00001c5l	Download File View File

STRUCTURAL BASIS FOR SELECTIVITY OF A SMALL MOLECULE, S1-BINDING, SUB-MICROMOLAR INHIBITOR OF UROKINASE TYPE PLASMINOGEN ACTIVATOR

Katz, B.A., Mackman, R., Luong, C., Radika, K., Martelli, A., Sprengeler, P.A., Wang, J., Chan, H., Wong, L.

(2000) Chem Biol 7: 299-312

Released	2000-12-22
Method	X-RAY DIFFRACTION 1.47 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) thrombin (protein)
Unique Ligands	CA, NA

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1C5O \| pdb_00001c5o	Download File View File

STRUCTURAL BASIS FOR SELECTIVITY OF A SMALL MOLECULE, S1-BINDING, SUB-MICROMOLAR INHIBITOR OF UROKINASE TYPE PLASMINOGEN ACTIVATOR

Katz, B.A., Mackman, R., Luong, C., Radika, K., Martelli, A., Sprengeler, P.A., Wang, J., Chan, H., Wong, L.

(2000) Chem Biol 7: 299-312

Released	2000-12-22
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	BEN, NA

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1GJ5 \| pdb_00001gj5	Download File View File

SELECTIVITY AT S1, H2O DISPLACEMENT, UPA, TPA, SER190/ALA190 PROTEASE, STRUCTURE-BASED DRUG DESIGN

Katz, B.A., Sprengeler, P.A., Luong, C., Verner, E., Spencer, J.R., Breitenbucher, J.G., Hui, H., McGee, D., Allen, D., Martelli, A., Mackman, R.L.

(2001) Chem Biol 8: 1107-1121

Released	2002-04-27
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	ACETYL HIRUDIN (protein) THROMBIN (protein)
Unique Ligands	130, NA

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1MU6 \| pdb_00001mu6	Download File View File

Crystal Structure of Thrombin in Complex with L-378,622

Burgey, C.S., Robinson, K.A., Lyle, T.A., Sanderson, P.E., Lewis, S.D., Lucas, B.J., Krueger, J.A., Singh, R., Miller-Stein, C., White, R.B., Wong, B., Lyle, E.A., Williams, P.D., Coburn, C.A., Dorsey, B.D., Barrow, J.C., Stranieri, M.T., Holahan, M.A., Sitko, G.R., Cook, J.J., McMasters, D.R., McDonough, C.M., Sanders, W.M., Wallace, A.A., Clayton, F.C., Bohn, D., Leonard, Y.M., Detwiler Jr., T.J., Lynch Jr., J.J., Yan, Y., Chen, Z., Kuo, L., Gardell, S.J., Shafer, J.A., Vacca, J.P.J.

(2003) J Med Chem 46: 461-473

Released	2004-04-06
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	HIRUDIN IIB (protein) THROMBIN (protein)
Unique Ligands	CDA

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1NM6 \| pdb_00001nm6	Download File View File

thrombin in complex with selective macrocyclic inhibitor at 1.8A

Nantermet, P.G., Barrow, J.C., Newton, C.L., Pellicore, J.M., Young, M., Lewis, S.D., Lucas, B.J., Krueger, J.A., McMasters, D.R., Yan, Y., Kuo, L.C., Vacca, J.P., Selnick, H.G.

(2003) Bioorg Med Chem Lett 13: 2781-2784

Released	2003-09-02
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) thrombin (protein)
Unique Ligands	L86

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1NT1 \| pdb_00001nt1	Download File View File

thrombin in complex with selective macrocyclic inhibitor

Nantermet, P.G., Barrow, J.C., Newton, C.L., Pellicore, J.M., Young, M., Lewis, S.D., Lucas, B.J., Krueger, J.A., McMasters, D.R., Yan, Y., Kuo, L.C., Vacca, J.P., Selnick, H.G.

(2003) Bioorg Med Chem Lett 13: 2781-2784

Released	2003-09-02
Method	X-RAY DIFFRACTION 2 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) thrombin (protein)
Unique Ligands	T76

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1O0D \| pdb_00001o0d	Download File View File

Human Thrombin complexed with a d-Phe-Pro-Arg-type Inhibitor and a C-terminal Hirudin derived exo-site inhibitor

Lange, U.E., Bauke, D., Hornberger, W., Mack, H., Seitz, W., Hoeffken, H.W.

(2003) Bioorg Med Chem Lett 13: 2029-2033

Released	2003-10-14
Method	X-RAY DIFFRACTION 2.44 Å
Organisms	Homo sapiens
Macromolecule	Decapeptide Hirudin Analogue (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	163

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1O2G \| pdb_00001o2g	Download File View File

Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors

Katz, B.A., Elrod, K., Verner, E., Mackman, R.L., Luong, C., Shrader, W., Sendzik, M., Spencer, J.R., Sprengeler, P.A., Kolesnikov, A., Tai, W.F., Hui, H., Breitenbucher, G., Allen, D., Janc, J.

(2003) J Mol Biology 329: 93-120

Released	2003-05-13
Method	X-RAY DIFFRACTION 1.58 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	ACETYL HIRUDIN (protein) THROMBIN (protein)
Unique Ligands	696, NA

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1O5G \| pdb_00001o5g	Download File View File

Dissecting and Designing Inhibitor Selectivity Determinants at the S1 site Using an Artificial Ala190 Protease (Ala190 uPA)

Katz, B.A., Luong, C., Ho, J.D., Somoza, J.R., Gjerstad, E., Tang, J., Williams, S.R., Verner, E., Mackman, R.L., Young, W.B., Sprengeler, P.A., Chan, H., Mortara, K., Janc, J.W., McGrath, M.E.

(2004) J Mol Biology 344: 527-547

Released	2004-09-21
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin IIIB' (protein) Prothrombin (protein)
Unique Ligands	CA, CR9, NA

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1QHR \| pdb_00001qhr	Download File View File

NOVEL COVALENT ACTIVE SITE THROMBIN INHIBITORS

Jhoti, H., Cleasby, A., Reid, S., Thomas, P., Wonacott, A.

(1999) Biochemistry 38: 7969-7977

Released	2000-05-31
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	ALPHA THROMBIN (protein) HIRUGEN (protein)
Unique Ligands	157

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1SL3 \| pdb_00001sl3	Download File View File

crystal structue of Thrombin in complex with a potent P1 heterocycle-Aryl based inhibitor

Young, M.B., Barrow, J.C., Glass, K.L., Lundell, G.F., Newton, C.L., Pellicore, J.M., Rittle, K.E., Selnick, H.G., Stauffer, K.J., Vacca, J.P., Williams, P.D., Bohn, D., Clayton, F.C., Cook, J.J., Krueger, J.A., Kuo, L.C., Lewis, S.D., Lucas, B.J., McMasters, D.R., Miller-Stein, C., Pietrak, B.L.

(2004) J Med Chem 47: 2995-3008

Released	2004-08-03
Method	X-RAY DIFFRACTION 1.81 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) thrombin (protein)
Unique Ligands	170

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1VR1 \| pdb_00001vr1	Download File View File

Specifity for Plasminogen Activator Inhibitor-1

Dekker, R.J., Eichinger, A., Stoop, A.A., Bode, W., Pannekoek, H., Horrevoets, A.J.G.

(1999) J Mol Biology 293: 613-627

Released	1999-12-29
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) thrombin (protein)

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1XX9 \| pdb_00001xx9	Download File View File

Crystal Structure of the FXIa Catalytic Domain in Complex with EcotinM84R

Jin, L., Pandey, P., Babine, R.E., Gorga, J.C., Seidl, K.J., Gelfand, E., Weaver, D.T., Abdel-Meguid, S.S., Strickler, J.E.

(2005) J Biological Chem 280: 4704-4712

Released	2004-11-16
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Coagulation factor XI (protein) Ecotin (protein)
Unique Ligands	NAG

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1XXD \| pdb_00001xxd	Download File View File

Crystal Structure of the FXIa Catalytic Domain in Complex with mutated Ecotin

Jin, L., Pandey, P., Babine, R.E., Gorga, J.C., Seidl, K.J., Gelfand, E., Weaver, D.T., Abdel-Meguid, S.S., Strickler, J.E.

(2005) J Biological Chem 280: 4704-4712

Released	2004-11-16
Method	X-RAY DIFFRACTION 2.91 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Coagulation factor XI (protein) Ecotin (protein)

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1XXF \| pdb_00001xxf	Download File View File

Crystal Structure of the FXIa Catalytic Domain in Complex with Ecotin Mutant (EcotinP)

Jin, L., Pandey, P., Babine, R.E., Gorga, J.C., Seidl, K.J., Gelfand, E., Weaver, D.T., Abdel-Meguid, S.S., Strickler, J.E.

(2005) J Biological Chem 280: 4704-4712

Released	2004-11-16
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli Homo sapiens
Macromolecule	Coagulation factor XI (protein) Ecotin (protein)
Unique Ligands	NA

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1YPE \| pdb_00001ype	Download File View File

Thrombin Inhibitor Complex

Fokkens, J., Obst-Sander, U., Heine, A., Diederich, F., Klebe, G.

(2006) Angew Chem Int Ed Engl 45: 985-989

Released	2006-01-17
Method	X-RAY DIFFRACTION 1.81 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	GOL, NA, UIP

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1YPG \| pdb_00001ypg	Download File View File

Thrombin Inhibitor Complex

Fokkens, J., Obst-Sander, U., Heine, A., Diederich, F., Klebe, G.

(2006) Angew Chem Int Ed Engl 45: 985-989

Released	2006-01-17
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	UIR

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1YPJ \| pdb_00001ypj	Download File View File

Thrombin Inhibitor Complex

Fokkens, J., Obst-Sander, U., Heine, A., Diederich, F., Klebe, G.

(2006) Angew Chem Int Ed Engl 45: 985-989

Released	2006-01-17
Method	X-RAY DIFFRACTION 1.78 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	UIB

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1YPL \| pdb_00001ypl	Download File View File

X-ray crystal structure of thrombin inhibited by synthetic cyanopeptide analogue RA-1008

Fokkens, J., Radau, G.

(2007) Pharmazie 62: 83-88

Released	2006-01-17
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) thrombin light chain (protein)
Unique Ligands	GOL, NA, RA8

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1YPM \| pdb_00001ypm	Download File View File

X-ray crystal structure of thrombin inhibited by synthetic cyanopeptide analogue RA-1014

Fokkens, J., Radau, G.

(2007) Pharmazie 62: 83-88

Released	2006-01-17
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) thrombin light chain (protein)
Unique Ligands	RA4

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1ZRB \| pdb_00001zrb	Download File View File

Thrombin in complex with an azafluorenyl inhibitor 23b

Stauffer, K.J., Williams, P.D., Selnick, H.G., Nantermet, P.G., Newton, C.L., Homnick, C.F., Zrada, M.M., Lewis, S.D., Lucas, B.J., Krueger, J.A., Pietrak, B.L., Lyle, E.A., Singh, R., Miller-Stein, C., White, R.B., Wong, B., Wallace, A.A., Sitko, G.R., Cook, J.J., Holahan, M.A., Stranieri-Michener, M., Leonard, Y.M., Lynch Jr., J.J., McMasters, D.R., Yan, Y.

(2005) J Med Chem 48: 2282-2293

Released	2005-06-07
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	11-peptide hirudin fragment (protein) thrombin (protein)
Unique Ligands	062

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2ERW \| pdb_00002erw	Download File View File

Crystal Structure of Infestin 4, a factor XIIa inhibitor

Campos, I.T.N., Tanaka, A.S., Barbosa, J.A.R.G.

(2012) Acta Crystallogr D Biol Crystallogr 68: 695-702

Released	2006-10-31
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Triatoma infestans
Macromolecule	serine protease inhibitor infestin (protein)

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2GDE \| pdb_00002gde	Download File View File

Thrombin in complex with inhibitor

Xue, Y.

(2006) J Am Chem Soc 128: 10491-10495

Released	2007-03-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Hirudo medicinalis Homo sapiens
Macromolecule	Hirudin (protein) Thrombin heavy chain (protein) Thrombin light chain (protein)
Unique Ligands	NA, SN3

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2HIJ \| pdb_00002hij	Download File View File

Crystal Structure of P14 Alanine Variant of Antithrombin

Luis, S.A., Bock, S.C., Huntington, J.A.

To be published

Released	2007-06-19
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens
Macromolecule	Antithrombin-III (protein)
Unique Ligands	GOL, NAG
Unique branched monosaccharides	MAN, NAG

1 to 25 of 36 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

Symmetry Type

SCOP Classification

1C1U | pdb_00001c1u

1C5L | pdb_00001c5l

1C5O | pdb_00001c5o

1GJ5 | pdb_00001gj5

1MU6 | pdb_00001mu6

1NM6 | pdb_00001nm6

1NT1 | pdb_00001nt1

1O0D | pdb_00001o0d

1O2G | pdb_00001o2g

1O5G | pdb_00001o5g

1QHR | pdb_00001qhr

1SL3 | pdb_00001sl3

1VR1 | pdb_00001vr1

1XX9 | pdb_00001xx9

1XXD | pdb_00001xxd

1XXF | pdb_00001xxf

1YPE | pdb_00001ype

1YPG | pdb_00001ypg

1YPJ | pdb_00001ypj

1YPL | pdb_00001ypl

1YPM | pdb_00001ypm

1ZRB | pdb_00001zrb

2ERW | pdb_00002erw

2GDE | pdb_00002gde

2HIJ | pdb_00002hij