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Biological Unit 4 (Jmol Viewer)

Title :   STRUCTURE OF HUMAN MICROSOMAL CYTOCHROME P450 (CYP) 2C19

Authors :   R. L. Reynald, S. Sansen, C. D. Stout, E. F. Johnson

Date :   23 Aug 12 (Deposition) - 14 Nov 12 (Release) - 16 Jan 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.87

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Monooxygenase, Drug Metabolizing Enzyme, Oxidoreductase, Heme Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. L. Reynald, S. Sansen, C. D. Stout, E. F. Johnson
Structural Characterization Of Human Cytochrome P450 2C19: Active Site Differences Between P450S 2C8, 2C9, And 2C19.
J. Biol. Chem. V. 287 44581 2012
PubMed-ID: 23118231 | Reference-DOI: 10.1074/JBC.M112.424895

Molecule 1 - CYTOCHROME P450 2C19
	Chains	:	A, B, C, D
	EC Number	:	1.14.13.-, 1.14.13.80, 1.14.13.48, 1.14.13.49
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCW0RI
	Expression System Strain	:	DH5ALPHA
	Expression System Taxid	:	668369
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC DOMAIN (UNP RESIDUES 21-490)
	Gene	:	CYP2C19
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Strain	:	ALLELIC VARIANT 1B
	Synonym	:	(R)-LIMONENE 6-MONOOXYGENASE, (S)-LIMONENE 6-MONOOXYGENASE, (S)-LIMONENE 7-MONOOXYGENASE, CYPIIC17, CYPIIC19, CYTOCHROME P450- 11A, CYTOCHROME P450-254C, MEPHENYTOIN 4-HYDROXYLASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 11)

No.	Name	Count	Type	Full Name
1	0XV	4	Ligand/Ion	(4-HYDROXY-3,5-DIMETHYLPHENYL)(2-METHYL-1-BENZOFURAN-3-YL)METHANONE
2	GOL	3	Ligand/Ion	GLYCEROL
3	HEM	4	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 1 (3, 5)

No.	Name	Count	Type	Full Name
1	0XV	1	Ligand/Ion	(4-HYDROXY-3,5-DIMETHYLPHENYL)(2-METHYL-1-BENZOFURAN-3-YL)METHANONE
2	GOL	3	Ligand/Ion	GLYCEROL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	0XV	1	Ligand/Ion	(4-HYDROXY-3,5-DIMETHYLPHENYL)(2-METHYL-1-BENZOFURAN-3-YL)METHANONE
2	GOL	-1	Ligand/Ion	GLYCEROL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	0XV	1	Ligand/Ion	(4-HYDROXY-3,5-DIMETHYLPHENYL)(2-METHYL-1-BENZOFURAN-3-YL)METHANONE
2	GOL	-1	Ligand/Ion	GLYCEROL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	0XV	1	Ligand/Ion	(4-HYDROXY-3,5-DIMETHYLPHENYL)(2-METHYL-1-BENZOFURAN-3-YL)METHANONE
2	GOL	-1	Ligand/Ion	GLYCEROL
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ARG A:97 , ILE A:112 , TRP A:120 , ARG A:124 , ALA A:297 , GLY A:298 , THR A:301 , THR A:302 , THR A:305 , SER A:365 , HIS A:368 , PRO A:427 , PHE A:428 , SER A:429 , ARG A:433 , CYS A:435 , VAL A:436 , GLY A:437 , HOH A:612	BINDING SITE FOR RESIDUE HEM A 501
02	AC2	SOFTWARE	PHE A:114 , ILE A:205 , VAL A:208 , ASP A:293 , ALA A:297 , GLU A:300 , THR A:301 , ILE A:362 , LEU A:366 , PHE A:476 , HOH A:601 , HOH A:612	BINDING SITE FOR RESIDUE 0XV A 502
03	AC3	SOFTWARE	VAL A:331 , ARG A:335 , HOH A:604	BINDING SITE FOR RESIDUE GOL A 503
04	AC4	SOFTWARE	PHE A:226	BINDING SITE FOR RESIDUE GOL A 504
05	AC5	SOFTWARE	ILE A:42 , GLN A:214 , ILE A:215 , ASN A:218 , HOH A:609	BINDING SITE FOR RESIDUE GOL A 505
06	AC6	SOFTWARE	ARG B:97 , ILE B:112 , TRP B:120 , ARG B:124 , ALA B:297 , GLY B:298 , THR B:301 , THR B:302 , THR B:305 , ILE B:362 , SER B:365 , HIS B:368 , PRO B:427 , PHE B:428 , SER B:429 , ARG B:433 , CYS B:435 , VAL B:436 , GLY B:437 , ALA B:441 , 0XV B:502	BINDING SITE FOR RESIDUE HEM B 501
07	AC7	SOFTWARE	VAL B:113 , PHE B:114 , ASP B:293 , GLY B:296 , ALA B:297 , GLU B:300 , THR B:301 , ILE B:362 , LEU B:366 , HEM B:501 , HOH B:601	BINDING SITE FOR RESIDUE 0XV B 502
08	AC8	SOFTWARE	ARG C:97 , ILE C:112 , VAL C:113 , TRP C:120 , ARG C:124 , ALA C:297 , GLY C:298 , THR C:301 , THR C:302 , THR C:305 , SER C:365 , HIS C:368 , PRO C:427 , PHE C:428 , SER C:429 , ARG C:433 , CYS C:435 , VAL C:436 , GLY C:437	BINDING SITE FOR RESIDUE HEM C 501
09	AC9	SOFTWARE	PHE C:114 , ILE C:205 , ASP C:293 , ALA C:297 , GLU C:300 , THR C:301 , ILE C:362 , LEU C:366 , PHE C:476 , HOH C:601	BINDING SITE FOR RESIDUE 0XV C 502
10	BC1	SOFTWARE	ARG D:97 , ILE D:112 , VAL D:113 , TRP D:120 , ARG D:124 , LEU D:294 , ALA D:297 , GLY D:298 , THR D:301 , THR D:302 , GLN D:356 , ILE D:362 , SER D:365 , HIS D:368 , PRO D:427 , PHE D:428 , SER D:429 , ARG D:433 , CYS D:435 , VAL D:436	BINDING SITE FOR RESIDUE HEM D 501
11	BC2	SOFTWARE	ILE D:205 , ASP D:293 , ALA D:297 , GLU D:300 , ILE D:362 , LEU D:366 , HOH D:601	BINDING SITE FOR RESIDUE 0XV D 502

(no "SS Bond" information available for 4GQS)

(no "Cis Peptide Bond" information available for 4GQS)

(no "SAP(SNP)/Variant" information available for 4GQS)

(no "PROSITE Motif" information available for 4GQS)

(no "Exon" information available for 4GQS)

Asymmetric 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:464
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4gqsa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhhhhhhhhh.eeeeee..eeeeee.hhhhhhhhhh.hhhhhhee....hhhhhh........hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.......ee................eeeehhhhhhh...........hhhhhh.......................hhhhhhhhhhhhhhhhhhheeeee........................eeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gqs A  29 LPPGPTPLPVIGNILQIDIKDVSKSLTNLSKIYGPVFTLYFGLERMVVLHGYEVVKEALIDLGEEFSGRGHFPLAERANRGFGIVFSNGKRWKEIRRFSLMTLRNFGMGKRSIEDRVQEEARCLVEELRKTKASPCDPTFILGCAPCNVICSIIFQKRFDYKDQQFLNLMEKLNENIRIVSTPWIQICNNFPTIIDYFPGTHNKLLKNLAFMESDILEKVKEHQESMDINNPRDFIDCFLIKMEKEKQNQQSEFTIENLVITAADLLGAGTETTSTTLRYALLLLLKHPEVTAKVQEEIERVVGRNRSPCMQDRGHMPYTDAVVHEVQRYIDLIPTSLPHAVTCDVKFRNYLIPKGTTILTSLTSVLHDNKEFPNPEMFDPRHFLDEGGNFKKSNYFMPFSAGKRICVGEGLARMELFLFLTFILQNFNLKSLIDPKDLDTTPVVNGFASVPPFYQLCFIPIHH 492
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488

Chain B from PDB  Type:PROTEIN  Length:456
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4gqsb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhh.eeeeee..eeeeee.hhhhhhhhhh.hhhhhhee..hhhhhhhhh.......hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhh.hhhhhhhhhhhhhhhh.......ee....eee..eee....eeeehhhhhhh...........hhhhhh.......................hhhhhhhhhhhhhhhhhh.eeeee..hhhhh.................eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gqs B  29 LPPGPTPLPVIGNILQIDIKDVSKSLTNLSKIYGPVFTLYFGLERMVVLHGYEVVKEALIDLGEEFSGRGHFPLAERANRGFGIVFSNGKRWKEIRRFSLMTLRNFGMGKRSIEDRVQEEARCLVEELRKTKASPCDPTFILGCAPCNVICSIIFQKRFDYKDQQFLNLMEKLNENIRIVSTPWIQICNNYFPGTHNKLLKNLAFMESDILEKVKEHQESMDINNPRDFIDCFLIKMEKEKQNQQSEFTIENLVITAADLLGAGTETTSTTLRYALLLLLKHPEVTAKVQEEIERVVGRNRSPCMQDRGHMPYTDAVVHEVQRYIDLIPTSLPHAVTCDVKFRNYLIPKGTTILTSLTSVLHDNKEFPNPEMFDPRHFLDEGGNFKKSNYFMPFSAGKRICVGEGLARMELFLFLTFILQNFNLKSLIDPKDLDTTPVVNGFASVPPFYQLCFIPI 490
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218|      234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484      
                                                                                                                                                                                                                       218|                                                                                                                                                                                                                                                                         
                                                                                                                                                                                                                        225

Chain C from PDB  Type:PROTEIN  Length:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4gqsc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhhhhh.eeeee....eeeee.hhhhhhhhhh.hhhhhhee..hhhhhhhhh.......hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhh.hhhhhhhhhhhhhhhh.......ee................eeeehhhhhhh...........hhhhhh................hhhhh..hhhhhhhhhhhhhhhhhhheeeee..hhhhh.................eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gqs C  29 LPPGPTPLPVIGNILQIDIKDVSKSLTNLSKIYGPVFTLYFGLERMVVLHGYEVVKEALIDLGEEFSGRGHFPLAERANRGFGIVFSNGKRWKEIRRFSLMTLRNFGMGKRSIEDRVQEEARCLVEELRKTKASPCDPTFILGCAPCNVICSIIFQKRFDYKDQQFLNLMEKLNENIRIVSTPWIQICNNFPTIIDYFPGTHNKLLKNLAFMESDILEKVKEHQESMDINNPRDFIDCFLIKMEKEKQNQQSEFTIENLVITAADLLGAGTETTSTTLRYALLLLLKHPEVTAKVQEEIERVVGRNRSPCMQDRGHMPYTDAVVHEVQRYIDLIPTSLPHAVTCDVKFRNYLIPKGTTILTSLTSVLHDNKEFPNPEMFDPRHFLDEGGNFKKSNYFMPFSAGKRICVGEGLARMELFLFLTFILQNFNLKSLIDPKDLDTTPVVNGFASVPPFYQLCFIPI 490
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488

Chain D from PDB  Type:PROTEIN  Length:452
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    
               SCOP domains d4gqsd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhh.hhhhhhhhhhhhhhhhh.eeeeee..eeeeeeehhhhhhhhhh.hhhhhh....hhhhhhhhh.......hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh.......ee....ee....ee....eeeeehhhhhh...........hhhhhh.......................hhhhhhhhhhhhhhhhhhh.eeee..hhhhh.................eeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gqs D  29 LPPGPTPLPVIGNILQIDIKDVSKSLTNLSKIYGPVFTLYFGLERMVVLHGYEVVKEALIDLGEEFSGRGHFPLAERANRGFGIVFSNGKRWKEIRRFSLMTLEDRVQEEARCLVEELRKTKASPCDPTFILGCAPCNVICSIIFQKRFDYKDQQFLNLMEKLNENIRIVSTPWIQICNNFPTIIDYFPGTHNKLLKNLAFMESDILEKVKEHQESMDINNPRDFIDCFLIKMEKEKQNQQSEFTIENLVITAADLLGAGTETTSTTLRYALLLLLKHPEVTAKVQEEIERVVGRNRSPCMQDRGHMPYTDAVVHEVQRYIDLIPTSLPHAVTCDVKFRNYLIPKGTTILTSLTSVLHDNKEFPNPEMFDPRHFLDEGGNFKKSNYFMPFSAGKRICVGEGLARMELFLFLTFILQNFNLKSLIDPKDLDTTPVVNGFASVPPFYQLCFIPI 490
                                    38        48        58        68        78        88        98       108       118       128  ||   148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488  
                                                                                                                                131|                                                                                                                                                                                                                                                                                                                                                            
                                                                                                                                 142

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Asymmetric Unit

Classes(

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Protein Domains( (-)

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Class: All alpha proteins (14657)

Fold: Cytochrome P450 (480)

Superfamily: Cytochrome P450 (480)

Family: Cytochrome P450 (323)

Protein domain: automated matches (44)

Human (Homo sapiens) [TaxId: 9606] (17)

1a	d4gqsa_	A:
1b	d4gqsb_	B:
1c	d4gqsc_	C:
1d	d4gqsd_	D:

(no "CATH Domain" information available for 4GQS)

(no "Pfam Domain" information available for 4GQS)

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1og2	CYTOCHROME P450 2C9
1og5	CYTOCHROME P450 2C9 S-WARFARIN COMPLEX
1pq2	CYTOCHROME P450 2C8
1r9o	CYTOCHROME P450 2C9 FLURBIPROFEN COMPLEX
2nni	CYTOCHROME P450 2C8 MONTELUKAST COMPLEX
2nnj	CYTOCHROME P450 2C8 FELODIPINE COMPLEX

Description

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Ligands, Modified Residues, Ions (3, 11)

Sites (11, 11)

SS Bonds (0, 0)

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Related Entries Specified in the PDB File