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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF STEROL 14ALPHA-DEMETHYLASE (CYP51) FROM TRYPANOSOMA CRUZI IN COMPLEX WITH INHIBITOR FLUCONAZOLE

Authors :   G. I. Lepesheva, T. Y. Hargrove, S. Anderson, Z. Wawrzak, M. R. Waterman

Date :   30 Oct 09 (Deposition) - 10 Nov 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.85

Chains :   Asym./Biol. Unit : A

Keywords :   Sterol 14-Alpha Demethylase, Cyp51, Cytochrome P450, Heme, Oxidoreductase, Monooxygenase, Endoplasmic Reticulum, Transmembrane Protein, Sterol Biosynthesis, Lipids, Membrane, Iron, Heme Thiolate Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. I. Lepesheva, T. Y. Hargrove, S. Anderson, Y. Kleshchenko, V. Furtak, Z. Wawrzak, F. Villalta, M. R. Waterman
Structural Insights Into Inhibition Of Sterol 14{Alpha}-Demethylase In The Human Pathogen Trypanosoma Cruzi.
J. Biol. Chem. V. 285 25582 2010
PubMed-ID: 20530488 | Reference-DOI: 10.1074/JBC.M110.133215

Molecule 1 - STEROL 14 ALPHA-DEMETHYLASE
	Chains	:	A
	EC Number	:	1.14.13.70
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCW
	Expression System Strain	:	HMS174
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 24-481
	Gene	:	CYP51
	Mutation	:	YES
	Organism Scientific	:	TRYPANOSOMA CRUZI
	Organism Taxid	:	5693

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 2)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	TPF	1	Ligand/Ion	2-(2,4-DIFLUOROPHENYL)-1,3-DI(1H-1,2,4-TRIAZOL-1-YL)PROPAN-2-OL

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:124 , LEU A:127 , LEU A:134 , ALA A:288 , ALA A:291 , GLY A:292 , THR A:295 , THR A:299 , PRO A:355 , LEU A:356 , VAL A:359 , ARG A:361 , GLY A:414 , PHE A:415 , GLY A:416 , VAL A:419 , HIS A:420 , LYS A:421 , CYS A:422 , ILE A:423 , GLY A:424 , TPF A:501	BINDING SITE FOR RESIDUE HEM A 500
2	AC2	SOFTWARE	TYR A:116 , PHE A:290 , ALA A:291 , THR A:295 , LEU A:356 , HEM A:500	BINDING SITE FOR RESIDUE TPF A 501

(no "SS Bond" information available for 3KHM)

Asymmetric/Biological Unit

No.	Residues
1	Thr A:25	-	Ser A:26
2	Ser A:26	-	Gly A:27
3	Pro A:210	-	Ala A:211

Asymmetric/Biological Unit (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_CP51_TRYCC_001 *	D	62	E	CP51_TRYCC	---	---	A	D	62	E
2	UniProt	VAR_CP51_TRYCC_002 *	A	117	S	CP51_TRYCC	---	---	A	A	117	S
3	UniProt	VAR_CP51_TRYCC_003 *	E	160	K	CP51_TRYCC	---	---	A	E	160	K
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric/Biological Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTOCHROME_P450	PS00086	Cytochrome P450 cysteine heme-iron ligand signature.	CP51_TRYCC	415-424	1	A:415-424

(no "Exon" information available for 3KHM)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:441
 aligned with CP51_TRYCC | Q7Z1V1 from UniProtKB/Swiss-Prot  Length:481

    Alignment length:456
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473      
           CP51_TRYCC    24 FNTTRPTDPPVYPVTVPFLGHIVQFGKNPLEFMQRCKRDLKSGVFTISIGGQRVTIVGDPHEHSRFFSPRNEILSPREVYTIMTPVFGEGVAYAAPYPRMREQLNFLAEELTIAKFQNFVPAIQHEVRKFMAENWKEDEGVINLLEDCGAMIINTACQCLFGEDLRKRLNARHFAQLLSKMESSLIPAAVFMPWLLRLPLPQSARCREARAELQKILGEIIVAREKEEASKDNNTSDLLGGLLKAVYRDGTRMSLHEVCGMIVAAMFAGQHTSTITTSWSMLHLMHPKNKKWLDKLHKEIDEFPAQLNYDNVMDEMPFAERCVRESIRRDPPLLMVMRMVKAEVKVGSYVVPKGDIIACSPLLSHHDEEAFPNPRLWDPERDEKVDGAFIGFGAGVHKCIGQKFALLQVKTILATAFREYDFQLLRDEVPDPDYHTMVVGPTLNQCLVKYTRKKKL 479
               SCOP domains d3khma_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....................hhhhhhhhhhhhhhhhhhhh...eeee......eeee.hhhhhhhhhh.....ee....hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh...eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......------........hhhhhhhhhhhhhhhhhhhhhhh.---------.hhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.....eeeee...eee..eee....eeeehhhhhh............................hhhhh..hhhhhhhhhhhhhhhhhhheeeee.......ee......ee.hhh.eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------E------------------------------------------------------S------------------------------------------K------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CYTOCHROME------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3khm A  24 KTSGKGKLPPVYPVTVPFLGHIVQFGKNPLEFMQRCKRDLKSGVFTISIGGQRVTIVGDPHEHSRFFSPRNEILSPREVYTIMTPVFGEGVAYAAPYPRMREQLNFLAEELTIAKFQNFVPAIQHEVRKFMAENWKEDEGVINLLEDCGAMIINTACQCLFGEDLRKRLNARHFAQLLSKMESSLIPA------LLRLPLPQSARCREARAELQKILGEIIVAREK---------SDLLGGLLKAVYRDGTRMSLHEVCGMIVAAMFAGQHTSTITTSWSMLHLMHPKNKKWLDKLHKEIDEFPAQLNYDNVMDEMPFAERCVRESIRRDPPLLMVMRMVKAEVKVGSYVVPKGDIIACSPLLSHHDEEAFPNPRLWDPERDEKVDGAFIGFGAGVHKCIGQKFALLQVKTILATAFREYDFQLLRDEVPDPDYHTMVVGPTLNQCLVKYTRKKKL 479
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       | -    |  223       233       243     |   -     | 263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473      
                                                                                                                                                                                                                     211    218                            249       259

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Cytochrome P450 (480)

Superfamily: Cytochrome P450 (480)

Family: automated matches (157)

Protein domain: automated matches (157)

Trypanosoma cruzi [TaxId: 5693] (5)

d3khma_

(no "CATH Domain" information available for 3KHM)

(no "Pfam Domain" information available for 3KHM)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CP51_TRYCC | Q7Z1V1)

molecular function
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0004497	monooxygenase activity	Catalysis of the incorporation of one atom from molecular oxygen into a compound and the reduction of the other atom of oxygen to water.
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0016705	oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from each of two donors, and molecular oxygen is reduced or incorporated into a donor.
	GO:0008398	sterol 14-demethylase activity	Catalysis of the reaction: obtusifoliol + 3 O2 + 3 NADPH + 3 H+ = 4-alpha-methyl-5-alpha-ergosta-8,14,24(28)-trien-3-beta-ol + formate + 3 NADP+ + 3 H2O.
biological process
	GO:0070988	demethylation	The process of removing one or more methyl groups from a molecule.
	GO:0006629	lipid metabolic process	The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
	GO:0006694	steroid biosynthetic process	The chemical reactions and pathways resulting in the formation of steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus; includes de novo formation and steroid interconversion by modification.
	GO:0008202	steroid metabolic process	The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus.
	GO:0016126	sterol biosynthetic process	The chemical reactions and pathways resulting in the formation of sterols, steroids with one or more hydroxyl groups and a hydrocarbon side-chain in the molecule.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Pro A:210 - Ala A:211	[ RasMol ]
		Ser A:26 - Gly A:27	[ RasMol ]
		Thr A:25 - Ser A:26	[ RasMol ]

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3k1o	CRYSTAL STRUCTURE OF STEROL 14ALPHA-DEMETHYLASE (CYP51) FROM TRYPANOSOMA CRUZI IN COMPLEX WITH POSACONAZOLE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 3)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (15, 15)

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