MultifacetedProtDB - Bologna Biocomputing Group

EC number	EC number description
5.2.1.8	Isomerases; cis-trans-Isomerases; cis-trans Isomerases (only sub-subclass identified to date); peptidylprolyl isomerase

Structure

PDB	Resolution (Å)	PDB name
6ZDJ	5.8	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,10)
1AWQ	1.58	CYPA COMPLEXED WITH HAGPIA (PSEUDO-SYMMETRIC MONOMER)
5KV2	1.7	Human cyclophilin A at 278K, Data set 4
1CWF	1.86	HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL CYCLOSPORIN
6X3R	1.8	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors
1CWA	2.1	X-RAY STRUCTURE OF A MONOMERIC CYCLOPHILIN A-CYCLOSPORIN A CRYSTAL COMPLEX AT 2.1 ANGSTROMS RESOLUTION
6Y9X	4.4	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,7)
4CYH	2.1	CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE HIS-PRO
1W8V	1.7	Enzymatic and structural characterization of non peptide ligand cyclophilin complexes
6Y9V	6.9	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-8,13)
1NMK	2.1	The Sanglifehrin-Cyclophilin Interaction: Degradation Work, Synthetic Macrocyclic Analogues, X-ray Crystal Structure and Binding Data
3K0Q	2.317	Cryogenic structure of CypA mutant Ser99Thr (2)
6U5G	2.5	MicroED structure of a FIB-milled CypA Crystal
5KV0	1.7	Human cyclophilin A at 278K, Data set 2
6Y9Z	4.8	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,9)
1W8L	1.8	Enzymatic and structural characterization of non peptide ligand cyclophilin complexes
1AK4	2.36	HUMAN CYCLOPHILIN A BOUND TO THE AMINO-TERMINAL DOMAIN OF HIV-1 CAPSID
1M9C	2.0	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) M-type Complex.
1VBT	2.3	Structure of cyclophilin complexed with sulfur-substituted tetrapeptide AAPF
6X4Q	1.8	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors: (2R,5S,11S,14S,18E)-14-cyclobutyl-2,11,17,17-tetramethyl-15-oxa-3,9,12,26,29-pentaazatetracyclo[18.5.3.1~5,9~.0~23,27~]nonacosa-1(25),18,20(28),21,23,26-hexaene-4,10,13,16-tetrone (compound 33)
4YUM	1.5	Multiconformer synchrotron model of CypA at 300 K
5NOT	1.45	Structure of cyclophilin A in complex with 4-chloropyrimidin-5-amine
5T9Z	1.4	Discovery of a Potent Cyclophilin Inhibitor (Compound 6) based on Structural Simplification of Sanglifehrin A
6U5C	1.62	RT XFEL structure of CypA solved using MESH injection system
7UXJ	2.07	Structure of PPIA in complex with FP29102, a Helicon Polypeptide
5TA2	1.48	Discovery of a Potent Cyclophilin Inhibitor (Compound 7) based on Structural Simplification of Sanglifehrin A
2X2D	1.95	acetyl-CypA:HIV-1 N-term capsid domain complex
1RMH	2.4	RECOMBINANT CYCLOPHILIN A FROM HUMAN T CELL
5NOU	1.3	Structure of cyclophilin A in complex with hexahydropyrimidin-2-one
4N1P	1.9	Structure of Cyclophilin A in complex with Picolinamide.
2X2C	2.41	acetyl-CypA:cyclosporine complex
4N1Q	1.65	Structure of Cyclophilin A in complex with cyclohexanecarboxamide.
1M9X	1.7	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) M-type H87A,A88M,G89A Complex.
5KV7	1.7	Human cyclophilin A at 278K, Data set 9
5TA4	1.5	Discovery of a Potent Cyclophilin Inhibitor (Compound 8) based on Structural Simplification of Sanglifehrin A
1MF8	3.1	Crystal Structure of human calcineurin complexed with cyclosporin A and human cyclophilin
5CYH	2.1	CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE GLY-PRO
6GJN	1.7	Cyclophilin A complexed with tri-vector ligand 15.
6GJL	1.16	Cyclophilin A complexed with tri-vector ligand 10.
1AWS	2.55	SECYPA COMPLEXED WITH HAGPIA (PSEUDO-SYMMETRIC MONOMER)
5FJB	9.0	Cyclophilin A Stabilize HIV-1 Capsid through a Novel Non- canonical Binding Site
7ABT	1.31	Structure of PPIA in complex with PR dipeptide repeat
1MIK	1.76	THE ROLE OF WATER MOLECULES IN THE STRUCTURE-BASED DESIGN OF (5-HYDROXYNORVALINE)-2-CYCLOSPORIN: SYNTHESIS, BIOLOGICAL ACTIVITY, AND CRYSTALLOGRAPHIC ANALYSIS WITH CYCLOPHILIN A
5KUS	1.7	Human cyclophilin A at 100K, Data set 6
2CYH	1.64	CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE ALA-PRO
1ZKF	2.55	Cyrstal Structure of Human Cyclophilin-A in Complex with suc-AGPF-pNA
5KUQ	1.7	Human cyclophilin A at 100K, Data set 4
5KUL	1.7	Human cyclophilin A at 100K, Data set 1
3RDD	2.14	Human Cyclophilin A Complexed with an Inhibitor
6GJY	1.29	Cyclophilin A complexed with tri-vector ligand 5.
6GJM	1.354	Cyclophilin A complexed with tri-vector ligand 4.
5KV4	1.7	Human cyclophilin A at 278K, Data set 6
4N1S	1.47	Structure of Cyclophilin A in complex with benzohydrazide.
6U5E	1.56	RT XFEL structure of CypA solved using celloluse carrier media
5KV6	1.7	Human cyclophilin A at 278K, Data set 8
4YUO	1.2	High-resolution multiconformer synchrotron model of CypA at 273 K
3ODL	2.31	Crystal structure of cyclophilin A in complex with Voclosporin Z-ISA247
6X4O	1.5	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors: (2R,5S,11S,14S,18E)-2,11-dimethyl-14-(propan-2-yl)-3-oxa-9,12,15,21,29-pentaazatetracyclo[18.5.3.1~5,9~.0~23,27~]nonacosa-1(26),18,20,22,24,27-hexaene-4,10,13,16-tetrone (compound 21)
4N1N	1.5	Structure of Cyclophilin A in complex with Benzamide.
2MS4		Cyclophilin a complexed with a fragment of crk-ii
6GJR	1.69	Cyclophilin A complexed with tri-vector ligand 9.
7QBW	1.59	Human Cyclophilin A double mutant C52AK125C
4YUG	1.48	Multiconformer synchrotron model of CypA at 100 K
1AWU	2.34	CYPA COMPLEXED WITH HVGPIA (PSEUDO-SYMMETRIC MONOMER)
5NOQ	1.6	Structure of cyclophilin A in complex with 3-chloropyridin-2-amine
4YUH	1.34	Multiconformer synchrotron model of CypA at 150 K
1CWJ	1.8	HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL 3-S-METHYL-SARCOSINE CYCLOSPORIN
1VBS	2.0	STRUCTURE OF CYCLOPHILIN COMPLEXED WITH (D)ALA CONTAINING TETRAPEPTIDE
7UXM	1.2	Structure of PPIA in complex with FP29092, a Helicon Polypeptide
6BTA	1.5	CypA Mutant - S99T C115S
2XGY	1.8	Complex of Rabbit Endogenous Lentivirus (RELIK)Capsid with Cyclophilin A
1M9F	1.73	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) M-type H87A,A88M Complex.
3K0N	1.391	Room temperature structure of CypA
6Y9W	4.1	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-13,8)
5KUU	1.7	Human cyclophilin A at 100K, Data set 7
7TA8		NMR structure of crosslinked cyclophilin A
4YUI	1.38	Multiconformer synchrotron model of CypA at 180 K
3CYS		DETERMINATION OF THE NMR SOLUTION STRUCTURE OF THE CYCLOPHILIN A-CYCLOSPORIN A COMPLEX
5T9U	2.301	Discovery of a Potent Cyclophilin Inhibitor (Compound 3) based on Structural Simplification of Sanglifehrin A
1M63	2.8	Crystal structure of calcineurin-cyclophilin-cyclosporin shows common but distinct recognition of immunophilin-drug complexes
1M9E	1.72	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) M-type H87A Complex.
6Y9Y	6.1	Structure of the native full-length HIV-1 capsid protein in complex with Cyclophilin A from helical assembly (-7,13)
5NOY	1.43	Structure of cyclophilin A in complex with 3,4-diaminobenzamide
5KV5	1.7	Human cyclophilin A at 278K, Data set 7
4N1M	1.15	Structure of Cyclophilin A in complex with GlyPro.
2ALF	1.9	crystal structure of human CypA mutant K131A
3CYH	1.9	CYCLOPHILIN A COMPLEXED WITH DIPEPTIDE SER-PRO
7UXN	1.36	Structure of PPIA in complex with FP29103, a Helicon Polypeptide
5T9W	2.0	Discovery of a Potent Cyclophilin Inhibitor (Compound 5) based on Structural Simplification of Sanglifehrin A
1YND	1.6	Structure of human cyclophilin A in complex with the novel immunosuppressant sanglifehrin A at 1.6A resolution
4YUL	1.42	Multiconformer synchrotron model of CypA at 280 K
5F66	1.15	High-resolution isotropic multiconformer synchrotron model of CypA at 273 K
3ODI	2.2	Crystal structure of cyclophilin A in complex with Voclosporin E-ISA247
2X25	1.2	Free acetyl-CypA orthorhombic form
4YUP	1.75	Multiconformer fixed-target X-ray free electron (XFEL) model of CypA at 273 K
5NOZ	1.61	Structure of cyclophilin A in complex with 3,4-diaminobenzohydrazide
1AWT	2.55	SECYPA COMPLEXED WITH HAGPIA
2MZU		Extending the eNOE data set of large proteins by evaluation of NOEs with unresolved diagonals
1CWI	1.9	HUMAN CYCLOPHILIN A COMPLEXED WITH 2-VAL 3-(N-METHYL)-D-ALANINE CYCLOSPORIN
1AWR	1.58	CYPA COMPLEXED WITH HAGPIA
1OCA		HUMAN CYCLOPHILIN A, UNLIGATED, NMR, 20 STRUCTURES
5KUO	1.7	Human cyclophilin A at 100K, Data set 3
5NOS	1.35	Structure of cyclophilin A in complex with 3-amino-1H-pyridin-2-one
5KUW	1.7	Human cyclophilin A at 100K, Data set 9
2RMA	2.1	Crystal structures of cyclophilin A complexed with cyclosporin A and N-methyl-4-[(E)-2-butenyl]-4,4-dimethylthreonine cyclosporin A
1CWK	1.8	HUMAN CYCLOPHILIN A COMPLEXED WITH 1-(6,7-DIHYDRO)MEBMT 2-VAL 3-D-(2-S-METHYL)SARCOSINE CYCLOSPORIN
5KUN	1.7	Human cyclophilin A at 100K, Data set 2
1M9Y	1.9	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) M-type H87A,G89A Complex.
5LUD	1.25	Structure of Cyclophilin A in complex with 2,3-Diaminopyridine
1FGL	1.8	Cyclophilin A complexed with a fragment of HIV-1 GAG protein
2N0T		Structural ensemble of the enzyme cyclophilin reveals an orchestrated mode of action at atomic resolution
4N1R	1.8	Structure of Cyclophilin A in complex with benzenesulfonohydrazide.
5KV3	1.7	Human cyclophilin A at 278K, Data set 5
6U5D	1.65	RT XFEL structure of CypA solved using LCP injection system
7UPN	3.5	Maedi visna virus Vif in complex with CypA and E3 ubiquitin ligase
6X4N	1.51	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors: (2R,5S,11S,14S,18E)-2,11,17,17-tetramethyl-14-(propan-2-yl)-3-oxa-9,12,15,26,29-pentaazatetracyclo[18.5.3.1~5,9~.0~23,27~]nonacosa-1(25),18,20(28),21,23,26-hexaene-4,10,13,16-tetrone (compound 24)
4YUN	1.58	Multiconformer synchrotron model of CypA at 310 K
6GJI	1.6	Cyclophilin A complexed with the tri-vector ligand 8.
5WC7	1.43	CypA Mutant - I97V S99T C115S
2RMB	2.1	Crystal structures of cyclophilin A complexed with cyclosporin A and N-methyl-4-[(E)-2-butenyl]-4,4-dimethylthreonine cyclosporin A
6X3Y	1.4	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors
1W8M	1.65	Enzymatic and Structural Characterisation of Non Peptide Ligand Cyclophilin Complexes
5NOV	2.0	Structure of cyclophilin A in complex with hexahydropyrimidine-2-thione
1BCK	1.8	HUMAN CYCLOPHILIN A COMPLEXED WITH 2-THR CYCLOSPORIN
5KUV	1.7	Human cyclophilin A at 100K, Data set 8
6GS6	1.16	Cyclophilin A single mutant D66A in complex with an inhibitor.
4YUJ	1.42	Multiconformer synchrotron model of CypA at 240 K
4YUK	1.48	Multiconformer synchrotron model of CypA at 260 K
1CWM	2.0	HUMAN CYCLOPHILIN A COMPLEXED WITH 4 MEILE CYCLOSPORIN
6I42	1.38	Structure of the alpha-Synuclein PreNAC/Cyclophilin A-complex
1CWL	1.8	HUMAN CYCLOPHILIN A COMPLEXED WITH 4 4-HYDROXY-MELEU CYCLOSPORIN
1CWH	1.86	HUMAN CYCLOPHILIN A COMPLEXED WITH 3-D-SER CYCLOSPORIN
5NOX	1.49	Structure of cyclophilin A in complex with 2-chloropyridin-3-amine
4IPZ	1.67	SmBz bound to Cyclophilin A
3K0R	2.424	Cryogenic structure of CypA mutant Arg55Lys
2X2A	1.4	Free acetyl-CypA trigonal form
1M9D	1.9	X-ray crystal structure of Cyclophilin A/HIV-1 CA N-terminal domain (1-146) O-type chimera Complex.
6GJJ	1.38	Cyclophilin A complexed with tri-vector ligand 2.
3K0M	1.25	Cryogenic structure of CypA
6GJP	1.94	Cyclophilin A complexed with tri-vector ligand 7.
5KUZ	1.7	Human cyclophilin A at 278K, Data set 1
6X4P	1.5	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors: (2R,5S,11S,14S,18E)-2,11,17,17-tetramethyl-14-(propan-2-yl)-15-oxa-3,9,12,26,29-pentaazatetracyclo[18.5.3.1~5,9~.0~23,27~]nonacosa-1(25),18,20(28),21,23,26-hexaene-4,10,13,16-tetrone (compound 28)
7PCJ	1.91	X-ray structure of CypA-C52AK125C/CsA/aromatic foldamer complex
5NOW	1.48	Structure of cyclophilin A in complex with pyridine-3,4-diamine
5NOR	1.8	Structure of cyclophilin A in complex with 3-methylpyridin-2-amine
2CPL	1.63	SIMILARITIES AND DIFFERENCES BETWEEN HUMAN CYCLOPHILIN A AND OTHER BETA-BARREL STRUCTURES. STRUCTURAL REFINEMENT AT 1.63 ANGSTROMS RESOLUTION
7N9X	3.511	CA-targeting nanobody is a tool for studying HIV-1 capsid lattice interactions
3K0P	1.649	Cryogenic structure of CypA mutant Ser99Thr
6X4M	1.5	Human cyclophilin A bound to a series of acylcic and macrocyclic inhibitors: tert-butyl [(2S)-1-{[(3S,17S)-2,16-dioxo-10,15-dioxa-1,21-diazatricyclo[15.3.1.1~5,9~]docosa-5(22),6,8-trien-3-yl]amino}-3-methyl-1-oxobutan-2-yl]carbamate (compound 3)
1CWO	1.86	HUMAN CYCLOPHILIN A COMPLEXED WITH THR2, LEU5, D-HIV8, LEU10 CYCLOSPORIN
5KUR	1.7	Human cyclophilin A at 100K, Data set 5
1AWV	2.34	CYPA COMPLEXED WITH HVGPIA
4N1O	1.75	Structure of Cyclophilin A in complex with Saccharin.
3K0O	1.55	Room temperature structure of CypA mutant Ser99Thr
1CWB	2.2	THE X-RAY STRUCTURE OF (MEBM2T)1-CYCLOSPORIN COMPLEXED WITH CYCLOPHILIN A PROVIDES AN EXPLANATION FOR ITS ANOMALOUSLY HIGH IMMUNOSUPPRESSIVE ACTIVITY
5KV1	1.7	Human cyclophilin A at 278K, Data set 3
1CWC	1.86	IMPROVED BINDING AFFINITY FOR CYCLOPHILIN A BY A CYCLOSPORIN DERIVATIVE SINGLY MODIFIED AT ITS EFFECTOR DOMAIN

GO term

GO ontology	GO term	GO description
Biological Process	GO:0032148	activation of protein kinase B activity
Biological Process	GO:0006915	apoptotic process
Biological Process	GO:0060352	cell adhesion molecule production
Biological Process	GO:0034599	cellular response to oxidative stress
Biological Process	GO:0042118	endothelial cell activation
Biological Process	GO:0030595	leukocyte chemotaxis
Biological Process	GO:0034389	lipid droplet organization
Biological Process	GO:1902176	negative regulation of oxidative stress-induced intrinsic apoptotic signaling pathway
Biological Process	GO:0061944	negative regulation of protein K48-linked ubiquitination
Biological Process	GO:0006469	negative regulation of protein kinase activity
Biological Process	GO:0001933	negative regulation of protein phosphorylation
Biological Process	GO:0032873	negative regulation of stress-activated MAPK cascade
Biological Process	GO:1903901	negative regulation of viral life cycle
Biological Process	GO:0030593	neutrophil chemotaxis
Biological Process	GO:0030168	platelet activation
Biological Process	GO:0070527	platelet aggregation
Biological Process	GO:0043410	positive regulation of MAPK cascade
Biological Process	GO:0051092	positive regulation of NF-kappaB transcription factor activity
Biological Process	GO:0035307	positive regulation of protein dephosphorylation
Biological Process	GO:0001934	positive regulation of protein phosphorylation
Biological Process	GO:0050714	positive regulation of protein secretion
Biological Process	GO:0045070	positive regulation of viral genome replication
Biological Process	GO:0006457	protein folding
Biological Process	GO:0000413	protein peptidyl-prolyl isomerization
Biological Process	GO:2001233	regulation of apoptotic signaling pathway
Biological Process	GO:0045069	regulation of viral genome replication
Biological Process	GO:0019076	viral release from host cell
Molecular Function	GO:0003723	RNA binding
Molecular Function	GO:0016018	cyclosporin A binding
Molecular Function	GO:1904399	heparan sulfate binding
Molecular Function	GO:0005178	integrin binding
Molecular Function	GO:0003755	peptidyl-prolyl cis-trans isomerase activity
Molecular Function	GO:0051082	unfolded protein binding
Molecular Function	GO:0046790	virion binding
Cellular Component	GO:0005737	cytoplasm
Cellular Component	GO:0005829	cytosol
Cellular Component	GO:0070062	extracellular exosome
Cellular Component	GO:0005576	extracellular region
Cellular Component	GO:0005615	extracellular space
Cellular Component	GO:1904813	ficolin-1-rich granule lumen
Cellular Component	GO:0005925	focal adhesion
Cellular Component	GO:0016020	membrane
Cellular Component	GO:0005634	nucleus
Cellular Component	GO:0032991	protein-containing complex
Cellular Component	GO:0034774	secretory granule lumen
Cellular Component	GO:0031982	vesicle

InterPro	InterPro name
IPR002130	Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain
IPR020892	Cyclophilin-type peptidyl-prolyl cis-trans isomerase, conserved site
IPR024936	Cyclophilin-type peptidyl-prolyl cis-trans isomerase
IPR029000	Cyclophilin-like domain superfamily

Reactome	Reactome Name	Node type	Reactome Root	Reactome Root Name
R-HSA-114608	Platelet degranulation	Leaf	R-HSA-109582	Hemostasis
R-HSA-162585	Uncoating of the HIV Virion	Leaf	R-HSA-1643685	Disease
R-HSA-162588	Budding and maturation of HIV virion	Leaf	R-HSA-1643685	Disease
R-HSA-162592	Integration of provirus	Internal node	R-HSA-1643685	Disease
R-HSA-162594	Early Phase of HIV Life Cycle	Internal node	R-HSA-1643685	Disease
R-HSA-164516	Minus-strand DNA synthesis	Leaf	R-HSA-1643685	Disease
R-HSA-164525	Plus-strand DNA synthesis	Leaf	R-HSA-1643685	Disease
R-HSA-173107	Binding and entry of HIV virion	Leaf	R-HSA-1643685	Disease
R-HSA-175474	Assembly Of The HIV Virion	Internal node	R-HSA-1643685	Disease
R-HSA-180689	APOBEC3G mediated resistance to HIV-1 infection	Leaf	R-HSA-1643685	Disease
R-HSA-2025928	Calcineurin activates NFAT	Leaf	R-HSA-168256	Immune System
R-HSA-210991	Basigin interactions	Leaf	R-HSA-109582	Hemostasis
R-HSA-6798695	Neutrophil degranulation	Leaf	R-HSA-168256	Immune System
R-HSA-8950505	Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation	Leaf	R-HSA-168256	Immune System
R-HSA-9692916	SARS-CoV-1 activates/modulates innate immune responses	Leaf	R-HSA-1643685	Disease

Location	ECO term	Pubmed
Cytoplasm	ECO:0000269	PubMed:26095851
Nucleus	ECO:0000269	PubMed:25678563
Secreted	ECO:0000269	PubMed:16527992

Summary of P62937

Gene: PPIA, CYPA
Protein: Peptidyl-prolyl cis-trans isomerase A

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Summary of P62937

Gene: PPIA, CYPA Protein: Peptidyl-prolyl cis-trans isomerase A

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Gene: PPIA, CYPA
Protein: Peptidyl-prolyl cis-trans isomerase A