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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Enzyme Classification Number = 2.1.1.78

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Search Summary

This query matches 164 Structures.

Refinements

Structure Determination Methodology

experimental (164)

Scientific Name of Source Organism

	Homo sapiens (88)
	Staphylococcus aureus (15)
	Enterococcus faecalis V583 (9)
	Drosophila melanogaster (5)
	Escherichia coli K-12 (5)
	Mycobacterium tuberculosis (5)
	Streptococcus pneumoniae R6 (5)
	Escherichia coli (4)
	Streptococcus pneumoniae GA47373 (4)
	Francisella tularensis subsp. holarctica LVS (3)

More...

Taxonomy

	Eukaryota (106)
	Bacteria (58)
	other sequences (3)

Experimental Method

X-RAY DIFFRACTION (164)

Polymer Entity Type

	Protein (164)
	DNA (1)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (31)
	1.5 - 2.0 (83)
	2.0 - 2.5 (37)
	2.5 - 3.0 (10)
	3.0 - 3.5 (1)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (1)
	2005 - 2009 (4)
	2010 - 2014 (94)
	2015 - 2019 (50)
	2020 - 2024 (14)

Enzyme Classification Name

	Isomerases (158)
	Transferases (14)
	Lyases (6)
	Oxidoreductases (11)
	Hydrolases (2)

Membrane Protein Annotation

	MemProtMD (8)
	PDBTM (8)
	mpstruc (4)
	OPM (1)

Symmetry Type

	Asymmetric (101)
	Cyclic (62)
	Dihedral (5)

SCOP Classification

	Alpha and beta proteins (a+b) (86)
	All beta proteins (46)
	Alpha and beta proteins (a/b) (14)
	All alpha proteins (7)
	Artifacts (18)
	Membrane and cell surface proteins and peptides (8)

AllSelected

1 to 25 of 164 Structures

Page 1 of 7

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1LOP \| pdb_00001lop	Download File View File

CYCLOPHILIN A COMPLEXED WITH SUCCINYL-ALA-PRO-ALA-P-NITROANILIDE

Konno, M.

(1996) J Mol Biology 256: 897-908

Released	1996-12-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	CYCLOPHILIN A (protein) SUCCINYL-ALA-PRO-ALA-P-NITROANILIDE (protein)

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1V9T \| pdb_00001v9t	Download File View File

Structure of E. coli cyclophilin B K163T mutant bound to succinyl-ALA-PRO-ALA-P-nitroanilide

Konno, M., Sano, Y., Okudaira, K., Kawaguchi, Y., Yamagishi-Ohmori, Y., Fushinobu, S., Matsuzawa, H.

(2004) Eur J Biochem 271: 3794-3803

Released	2004-09-21
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli
Macromolecule	(SIN)APA(NIT) (protein) cyclophilin B (protein)

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1VDN \| pdb_00001vdn	Download File View File

Crystal Structure Of Yeast Cyclophilin A Complexed With ACE-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin

Konno, M., Shibano, T., Okudaira, K., Takahashi, N.

To be published

Released	2005-06-28
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	(ACE)AAPA(MCM) (protein) Cyclophilin A (protein)

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2ITK \| pdb_00002itk	Download File View File

human Pin1 bound to D-PEPTIDE

Noel, J.P., Zhang, Y.

(2007) ACS Chem Biol 2: 320-328

Released	2007-05-22
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	D-Peptide (protein) Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (protein)
Unique Ligands	PE4

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2IXP \| pdb_00002ixp	Download File View File

Crystal structure of the Pp2A phosphatase activator Ypa1 PTPA1 in complex with model substrate

Leulliot, N., Vicentini, G., Jordens, J., Quevillon-Cheruel, S., Schiltz, M., Barford, D., Van Tilbeurgh, H., Goris, J.

(2006) Mol Cell 23: 413-424

Released	2006-07-31
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Saccharomyces cerevisiae synthetic construct
Macromolecule	SERINE/THREONINE-PROTEIN PHOSPHATASE 2A ACTIVATOR 1 (protein) SIN-ALA-ALA-PRO-LYS-NIT (protein)
Unique Ligands	CL, SO4

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2Q5A \| pdb_00002q5a	Download File View File

human Pin1 bound to L-PEPTIDE

Noel, J.P., Zhang, Y.

(2007) ACS Chem Biol 2: 320-328

Released	2007-06-26
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Homo sapiens
Macromolecule	Five residue peptide (protein) Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (protein)
Unique Ligands	16P

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3AU9 \| pdb_00003au9	Download File View File

Crystal structure of the quaternary complex-1 of an isomerase

Umeda, T., Tanaka, N., Kusakabe, Y., Nakanishi, M., Kitade, Y., Nakamura, K.T.

(2011) Sci Rep 1: 9-9

Released	2011-08-10
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Plasmodium falciparum
Macromolecule	1-deoxy-D-xylulose 5-phosphate reductoisomerase (protein)
Unique Ligands	CA, FOM, MG, NDP

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3AUA \| pdb_00003aua	Download File View File

Crystal structure of the quaternary complex-2 of an isomerase

Umeda, T., Tanaka, N., Kusakabe, Y., Nakanishi, M., Kitade, Y., Nakamura, K.T.

(2011) Sci Rep 1: 9-9

Released	2011-08-10
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Plasmodium falciparum
Macromolecule	1-deoxy-D-xylulose 5-phosphate reductoisomerase (protein)
Unique Ligands	CA, F98, MG, NDP

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3G75 \| pdb_00003g75	Download File View File

Crystal structure of Staphylococcus aureus Gyrase B co-complexed with 4-METHYL-5-[3-(METHYLSULFANYL)-1H-PYRAZOL-5-YL]-2-THIOPHEN-2-YL-1,3-THIAZOLE inhibitor

Wei, Y., Charifson, P.

(2010) Bioorg Med Chem Lett 20: 2828-2831

Released	2010-02-09
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Staphylococcus aureus
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	B48

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3G7B \| pdb_00003g7b	Download File View File

Staphylococcus aureus Gyrase B co-complex with METHYL ({5-[4-(4-HYDROXYPIPERIDIN-1-YL)-2-PHENYL-1,3-THIAZOL-5-YL]-1H-PYRAZOL-3-YL}METHYL)CARBAMATE inhibitor

Wei, Y., Charisfon, P.

(2010) Bioorg Med Chem Lett 20: 2828-2831

Released	2010-02-09
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Staphylococcus aureus
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	B47

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3G7E \| pdb_00003g7e	Download File View File

Crystal structure of E. coli Gyrase B co-complexed with PROP-2-YN-1-YL {[5-(4-PIPERIDIN-1-YL-2-PYRIDIN-3-YL-1,3-THIAZOL-5-YL)-1H-PYRAZOL-3-YL]METHYL}CARBAMATE inhibitor

Wei, Y., Charifson, P.

(2010) Bioorg Med Chem Lett 20: 2828-2831

Released	2010-02-09
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli
Macromolecule	DNA gyrase subunit B (protein)
Unique Ligands	B46

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3NTP \| pdb_00003ntp	Download File View File

Human Pin1 complexed with reduced amide inhibitor

Zhang, Y.

(2011) Biochemistry 50: 9545-9550

Released	2012-01-04
Method	X-RAY DIFFRACTION 1.762 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 (protein)
Unique Ligands	PE8, RZD

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3R49 \| pdb_00003r49	Download File View File

Human cyclophilin D complexed with quinolin-8-amine

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.77 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	Q8A

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3R4G \| pdb_00003r4g	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.05 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	4SO, GOL

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3R54 \| pdb_00003r54	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	FP6

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3R56 \| pdb_00003r56	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	6AI, P33

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3R57 \| pdb_00003r57	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.71 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	GOL, N3M, NA

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3R59 \| pdb_00003r59	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	3AO

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3RCF \| pdb_00003rcf	Download File View File

Human cyclophilin D complexed with N-[(4-aminophenyl)sulfonyl]benzamide

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.15 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	BS4

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3RCG \| pdb_00003rcg	Download File View File

Human cyclophilin D complexed with dimethylformamide

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 0.97 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	CL, DMF

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3RCI \| pdb_00003rci	Download File View File

Human cyclophilin D complexed with 5-methyl-1,2-oxazol-3-amine

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.44 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	M3I

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3RCK \| pdb_00003rck	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.26 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	1FP

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3RCL \| pdb_00003rcl	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	5AO, P4C

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3RD9 \| pdb_00003rd9	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	MSY, PEG

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3RDA \| pdb_00003rda	Download File View File

Human Cyclophilin D Complexed with a Fragment

Colliandre, L., Ahmed-Belkacem, H., Bessin, Y., Pawlotsky, J.M., Guichou, J.F.

(2016) Nat Commun 7: 12777-12777

Released	2012-03-21
Method	X-RAY DIFFRACTION 1.07 Å
Organisms	Homo sapiens
Macromolecule	Peptidyl-prolyl cis-trans isomerase F, mitochondrial (protein)
Unique Ligands	MIO

1 to 25 of 164 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

1LOP | pdb_00001lop

1V9T | pdb_00001v9t

1VDN | pdb_00001vdn

2ITK | pdb_00002itk

2IXP | pdb_00002ixp

2Q5A | pdb_00002q5a

3AU9 | pdb_00003au9

3AUA | pdb_00003aua

3G75 | pdb_00003g75

3G7B | pdb_00003g7b

3G7E | pdb_00003g7e

3NTP | pdb_00003ntp

3R49 | pdb_00003r49

3R4G | pdb_00003r4g

3R54 | pdb_00003r54

3R56 | pdb_00003r56

3R57 | pdb_00003r57

3R59 | pdb_00003r59

3RCF | pdb_00003rcf

3RCG | pdb_00003rcg

3RCI | pdb_00003rci

3RCK | pdb_00003rck

3RCL | pdb_00003rcl

3RD9 | pdb_00003rd9

3RDA | pdb_00003rda