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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Tomich, P.K."

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Search Summary

This query matches 13 Structures.

Refinements

Structure Determination Methodology

experimental (13)

Scientific Name of Source Organism

	Human immunodeficiency virus 1 (6)
	Human immunodeficiency virus 2 (4)
	Staphylococcus aureus subsp. aureus COL (2)
	Staphylococcus aureus (1)

Taxonomy

	Riboviria (10)
	Bacteria (3)

Experimental Method

X-RAY DIFFRACTION (13)

Polymer Entity Type

Protein (13)

Refinement Resolution (Å)

	1.5 - 2.0 (2)
	2.0 - 2.5 (7)
	2.5 - 3.0 (3)
	3.0 - 3.5 (1)

Release Date

	1995 - 1999 (10)
	2005 - 2009 (3)

Enzyme Classification Name

	Hydrolases (9)
	Ligases (3)

Symmetry Type

Cyclic (13)

SCOP Classification

	All beta proteins (10)
	Alpha and beta proteins (a+b) (3)
	Alpha and beta proteins (a/b) (3)
	Artifacts (3)

AllSelected

1 to 13 of 13 Structures

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Explore in 3D

1D4S \| pdb_00001d4s	Download File View File

HIV-1 PROTEASE V82F/I84V DOUBLE MUTANT/TIPRANAVIR COMPLEX

Watenpaugh, K.D., Janakiraman, M.N.

(1996) J Med Chem 39: 4349-4353

Released	1999-10-12
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	PROTEIN (HIV-1 PROTEASE) (protein)
Unique Ligands	TPV

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1D4Y \| pdb_00001d4y	Download File View File

HIV-1 PROTEASE TRIPLE MUTANT/TIPRANAVIR COMPLEX

Watenpaugh, K.D., Janakiraman, M.N.

(1996) J Med Chem 39: 4349-4353

Released	1999-10-13
Method	X-RAY DIFFRACTION 1.97 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	PROTEIN (HIV-1 PROTEASE) (protein)
Unique Ligands	TPV

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1HPO \| pdb_00001hpo	Download File View File

HIV-1 PROTEASE TRIPLE MUTANT/U103265 COMPLEX

Watenpaugh, K.D., Janakiraman, M.N.

(1997) J Med Chem 40: 1149-1164

Released	1997-04-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	UNI

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1UPJ \| pdb_00001upj	Download File View File

HIV-1 PROTEASE COMPLEX WITH U095438 [3-[1-(4-BROMOPHENYL) ISOBUTYL]-4-HYDROXYCOUMARIN

Watenpaugh, K.D., Mulichak, A.M., Janakiraman, M.N.

(1995) J Med Chem 38: 3624-3637

Released	1996-10-14
Method	X-RAY DIFFRACTION 2.22 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	U01

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2I80 \| pdb_00002i80	Download File View File

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

Liu, S., Chang, J.S., Herberg, J.T., Horng, M.-M., Tomich, P.K., Lin, A.H., Marotti, K.R.

(2006) Proc Natl Acad Sci U S A 103: 15178-15183

Released	2006-09-26
Method	X-RAY DIFFRACTION 2.19 Å
Organisms	Staphylococcus aureus
Macromolecule	D-alanine-D-alanine ligase (protein)
Unique Ligands	G1L

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2I87 \| pdb_00002i87	Download File View File

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

Liu, S., Chang, J.S., Herberg, J.T., Horng, M., Tomich, P.K., Lin, A.H., Marotti, K.R.

(2006) Proc Natl Acad Sci U S A 103: 15178-15183

Released	2006-10-03
Method	X-RAY DIFFRACTION 2 Å
Organisms	Staphylococcus aureus subsp. aureus COL
Macromolecule	D-alanine-D-alanine ligase (protein)
Unique Ligands	SO4

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2I8C \| pdb_00002i8c	Download File View File

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

Liu, S., Chang, J.S., Herberg, J.T., Horng, M., Tomich, P.K., Lin, A.H., Marotti, K.R.

(2006) Proc Natl Acad Sci U S A 103: 15178-15183

Released	2006-09-26
Method	X-RAY DIFFRACTION 2.46 Å
Organisms	Staphylococcus aureus subsp. aureus COL
Macromolecule	D-alanine-D-alanine ligase (protein)
Unique Ligands	ADP, MG, SO4

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2UPJ \| pdb_00002upj	Download File View File

HIV-1 PROTEASE COMPLEX WITH U100313 ([3-[[3-[CYCLOPROPYL [4-HYDROXY-2OXO-6-[1-(PHENYLMETHYL)PROPYL]-2H-PYRAN-3-YL] METHYL]PHENYL]AMINO]-3-OXO-PROPYL]CARBAMIC ACID TERT-BUTYL ESTER)

Watenpaugh, K.D., Mulichak, A.M., Janakiraman, M.N.

(1995) J Med Chem 38: 3624-3637

Released	1996-10-14
Method	X-RAY DIFFRACTION 3 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	U02

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3UPJ \| pdb_00003upj	Download File View File

HUMAN IMMUNODEFICIENCY VIRUS TYPE 2 PROTEASE MUTANT WITH LYS 57 REPLACED BY LEU (K57L) COMPLEX WITH U096333 [4-HYDROXY-3-[1-(PHENYL)PROPYL]-7-METHOXYCOUMARIN]

Watenpaugh, K.D., Mulichak, A.M., Janakiraman, M.N.

(1995) J Med Chem 38: 3624-3637

Released	1996-10-14
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Human immunodeficiency virus 2
Macromolecule	HIV-2 PROTEASE (protein)
Unique Ligands	U03

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4UPJ \| pdb_00004upj	Download File View File

HUMAN IMMUNODEFICIENCY VIRUS TYPE 2 PROTEASE MUTANT WITH LYS 57 REPLACED BY LEU (K57L) COMPLEX WITH U097410 [4-HYDROXY-3-[1-[3-[[[[(TERT-BUTYLOXYCARBONYL) AMINOMETHYL]CARBONYL]AMINO]PHENYL]PROPYL]COUMARIN

Watenpaugh, K.D., Mulichak, A.M., Janakiraman, M.N.

(1995) J Med Chem 38: 3624-3637

Released	1996-10-14
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 2
Macromolecule	HIV-2 PROTEASE (protein)
Unique Ligands	U04

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5UPJ \| pdb_00005upj	Download File View File

HIV-2 PROTEASE/U99283 COMPLEX

Watenpaugh, K.D., Mulichak, A.M., Finzel, B.C.

(1995) J Med Chem 38: 1884-1891

Released	1997-04-21
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Human immunodeficiency virus 2
Macromolecule	HIV-2 PROTEASE (protein)
Unique Ligands	UIN

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6UPJ \| pdb_00006upj	Download File View File

HIV-2 PROTEASE/U99294 COMPLEX

Watenpaugh, K.D., Mulichak, A.M., Finzel, B.C.

(1995) J Med Chem 38: 1884-1891

Released	1997-04-21
Method	X-RAY DIFFRACTION 2.34 Å
Organisms	Human immunodeficiency virus 2
Macromolecule	HIV-2 PROTEASE (protein)
Unique Ligands	NIU

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7UPJ \| pdb_00007upj	Download File View File

HIV-1 PROTEASE/U101935 COMPLEX

Watenpaugh, K.D., Janakiraman, M.N.

(1997) J Med Chem 40: 1149-1164

Released	1997-04-21
Method	X-RAY DIFFRACTION 2 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	INU

1 to 13 of 13 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

1D4S | pdb_00001d4s

HIV-1 PROTEASE V82F/I84V DOUBLE MUTANT/TIPRANAVIR COMPLEX

1D4Y | pdb_00001d4y

HIV-1 PROTEASE TRIPLE MUTANT/TIPRANAVIR COMPLEX

1HPO | pdb_00001hpo

HIV-1 PROTEASE TRIPLE MUTANT/U103265 COMPLEX

1UPJ | pdb_00001upj

HIV-1 PROTEASE COMPLEX WITH U095438 [3-[1-(4-BROMOPHENYL) ISOBUTYL]-4-HYDROXYCOUMARIN

2I80 | pdb_00002i80

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

2I87 | pdb_00002i87

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

2I8C | pdb_00002i8c

Allosteric inhibition of Staphylococcus aureus D-alanine:D-alanine ligase revealed by crystallographic studies

2UPJ | pdb_00002upj

HIV-1 PROTEASE COMPLEX WITH U100313 ([3-[[3-[CYCLOPROPYL [4-HYDROXY-2OXO-6-[1-(PHENYLMETHYL)PROPYL]-2H-PYRAN-3-YL] METHYL]PHENYL]AMINO]-3-OXO-PROPYL]CARBAMIC ACID TERT-BUTYL ESTER)

3UPJ | pdb_00003upj

HUMAN IMMUNODEFICIENCY VIRUS TYPE 2 PROTEASE MUTANT WITH LYS 57 REPLACED BY LEU (K57L) COMPLEX WITH U096333 [4-HYDROXY-3-[1-(PHENYL)PROPYL]-7-METHOXYCOUMARIN]

4UPJ | pdb_00004upj

HUMAN IMMUNODEFICIENCY VIRUS TYPE 2 PROTEASE MUTANT WITH LYS 57 REPLACED BY LEU (K57L) COMPLEX WITH U097410 [4-HYDROXY-3-[1-[3-[[[[(TERT-BUTYLOXYCARBONYL) AMINOMETHYL]CARBONYL]AMINO]PHENYL]PROPYL]COUMARIN

5UPJ | pdb_00005upj

HIV-2 PROTEASE/U99283 COMPLEX

6UPJ | pdb_00006upj

HIV-2 PROTEASE/U99294 COMPLEX

7UPJ | pdb_00007upj

HIV-1 PROTEASE/U101935 COMPLEX

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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

1D4S | pdb_00001d4s

1D4Y | pdb_00001d4y

1HPO | pdb_00001hpo

1UPJ | pdb_00001upj

2I80 | pdb_00002i80

2I87 | pdb_00002i87

2I8C | pdb_00002i8c

2UPJ | pdb_00002upj

3UPJ | pdb_00003upj

4UPJ | pdb_00004upj

5UPJ | pdb_00005upj

6UPJ | pdb_00006upj

7UPJ | pdb_00007upj