5BV5 - JenaLib

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Biological Unit 6 (Jmol Viewer)

Biological Unit 7 (Jmol Viewer)

Biological Unit 8 (Jmol Viewer)

Title :   STRUCTURE OF CYP119 WITH T213A AND C317H MUTATIONS

Authors :   A. R. Buller, T. Heel, J. A. Mcintosh, F. H. Arnold

Date :   04 Jun 15 (Deposition) - 03 Feb 16 (Release) - 03 Feb 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: D  (1x)
Biol. Unit 4: C  (1x)
Biol. Unit 5: A (1x),B (1x),C (1x),D (1x)
Biol. Unit 6: A (1x),B (1x),C (1x),D (1x)
Biol. Unit 7: A (1x),D (1x)
Biol. Unit 8: B (1x),C (1x)

Keywords :   P450, Heme, P420, Cytochrome, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. A. Mcintosh, T. Heel, A. R. Buller, L. Chio, F. H. Arnold
Structural Adaptability Facilitates Histidine Heme Ligation In A Cytochrome P450.
J. Am. Chem. Soc. V. 137 13861 2015
PubMed-ID: 26299431 | Reference-DOI: 10.1021/JACS.5B07107

Molecule 1 - CYTOCHROME P450 119
	Chains	:	A, B, D, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	SULFOLOBUS SOLFATARICUS
	Organism Taxid	:	2287

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:				D
Biological Unit 4 (1x)	:			C
Biological Unit 5 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)
Biological Unit 6 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)
Biological Unit 7 (1x)	:	A (1x)			D (1x)
Biological Unit 8 (1x)	:		B (1x)	C (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 9)

No.	Name	Count	Type	Full Name
1	HEM	4	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	3	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	-1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	-1	Ligand/Ion	PHOSPHATE ION

Biological Unit 4 (2, 2)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	-1	Ligand/Ion	PHOSPHATE ION

Biological Unit 5 (3, 5)

No.	Name	Count	Type	Full Name
1	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	2	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 6 (3, 3)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 7 (2, 2)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	-1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Biological Unit 8 (3, 3)

No.	Name	Count	Type	Full Name
1	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
2	PIM	1	Ligand/Ion	4-PHENYL-1H-IMIDAZOLE
3	PO4	1	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	MET A:1 , TYR A:2 , MET C:1 , TYR C:2	binding site for residue PO4 A 601
2	AC2	SOFTWARE	LEU A:207 , GLY A:210 , ASN A:211 , ALA A:213 , THR A:214 , VAL A:254 , THR A:257 , ARG A:259 , SER A:309 , PHE A:310 , SER A:312 , HIS A:317 , ALA A:323 , HOH A:701	binding site for residue HEM A 602
3	AC3	SOFTWARE	MET B:1 , TYR B:2 , ASP B:3 , MET D:1 , TYR D:2	binding site for residue PO4 B 601
4	AC4	SOFTWARE	LEU B:207 , GLY B:210 , ALA B:213 , THR B:214 , THR B:257 , ARG B:259 , SER B:309 , PHE B:310 , GLY B:311 , HIS B:317 , GLY B:319 , ALA B:323 , PIM B:603	binding site for residue HEM B 602
5	AC5	SOFTWARE	GLY B:210 , ALA B:213 , LEU B:354 , HEM B:602	binding site for residue PIM B 603
6	AC6	SOFTWARE	SER D:41 , HIS D:76 , LEU D:79 , LEU D:207 , GLY D:210 , ASN D:211 , ALA D:213 , LEU D:217 , THR D:257 , ARG D:259 , ILE D:282 , SER D:309 , PHE D:310 , SER D:312 , HIS D:317 , PIM D:501	binding site for residue HEM D 500
7	AC7	SOFTWARE	GLY D:210 , ALA D:213 , HEM D:500	binding site for residue PIM D 501
8	AC8	SOFTWARE	LEU C:33 , HIS C:76 , LEU C:207 , GLY C:210 , ASN C:211 , ALA C:213 , VAL C:254 , THR C:257 , ARG C:259 , ILE C:282 , SER C:309 , PHE C:310 , GLY C:311 , SER C:312 , HIS C:317 , PIM C:501	binding site for residue HEM C 500
9	AC9	SOFTWARE	GLY C:210 , ALA C:213 , HEM C:500	binding site for residue PIM C 501

(no "SS Bond" information available for 5BV5)

Asymmetric Unit

No.	Residues
1	Asn A:303	-	Pro A:304
2	Asn B:303	-	Pro B:304
3	Asn D:303	-	Pro D:304
4	Asn C:303	-	Pro C:304

(no "SAP(SNP)/Variant" information available for 5BV5)

(no "PROSITE Motif" information available for 5BV5)

(no "Exon" information available for 5BV5)

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:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh.eee....eee.hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhh.hhhhhhhhhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....eeeeee...eee..eee....eeeeehhhhh.............................hhhhhhhhhhhhhhhhhhhh..eeeeeeee........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bv5 A   1 MYDWFSEMRKKDPVYYDGNIWQVFSYRYTKEVLNNFSKFSSDLPPLHDELRSMSADIFSPQKLQTLETFIRETTRSLLDSIDPREDDIVKKLAVPLPIIVISKILGLPIEDKEKFKEWSIFELGKKYLELIGYVKDHLSGTEVVSRLSDIEKLGYIILLLIAGNEATTNLISNSVIDFTRFNLWQRIREENLYLKAIEEALRYSPPVMRTVRKTKERVKLGDQTIEEGEYVRVWIASANRDEEVFHDGEKFIPDRNPNPHLSFGSLHLGAPLARLEARIAIEEFSKRFRHIEILDTEKVPNEVLNGYKRLVVRLK 365
                                    10        20        30        40  ||    79        89        99       109       119       129       139       161       171       182     ||197       207       217       227       237       247       257       267       277       287       297       307    || 320       330       340       350       360     
                                                                     43|                                                                        148|               179|    188|                                                                                                                   312|                                                 
                                                                      73                                                                         161                181     194                                                                                                                    316

Chain B from PDB  Type:PROTEIN  Length:288
                                                                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhh.eee....eee.hhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhhh....eehhhhh.hhhhhhhhhhhhh....hhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....eeeeee...eee..eee....eeeeehhhhh...............................hhhhhhhhhhhhhhhhhhhh...eeeeeee........eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5bv5 B   1 MYDWFSEMRKKDPVYYDGNIWQVFSYRYTKEVLNNFSKFSSDFSPQKLQTLETFIRETTRSLLDSIDPREDDIVKKLAVPLPIIVISKILGLPIKEKFKEWSDLLGKKYLELIGYVKLSDIEKLGYIILLLIAGNEATTNLISNSVIDFTRFNLWQRIREENLYLKAIEEALRYSPPVMRTVRKTKERVKLGDQTIEEGEYVRVWIASANRDEEVFHDGEKFIPDRNPNPHLSFGSGILHLGAPLARLEARIAIEEFSKRFRHIEILDTEKVPNEVLNGYKRLVVRLK 365
                                    10        20        30        40 ||     94       104       114       124       134   ||  146   ||  169      |196       206       216       226       236       246       256       266       276       286       296       306       317       327       337       347       357        
                                                                    42|                                                138|      150|         176|                                                                                                                     314|                                                 
                                                                     87                                                 141       164          194                                                                                                                      316

Chain C from PDB  Type:PROTEIN  Length:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh.eee....eee.hhhhhhhhhhh...ee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....eeeeee...eee..eee....eeeeehhhhh................................hhhhhhhhhhhhhhhhhhhh...eeeeeee........eeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bv5 C   1 MYDWFSEMRKKDPVYYDGNIWQVFSYRYTKEVLNNFSKFSSDLPLHDELRSMSADIFSPQKLQTLETFIRETTRSLLDSIDPREDDIVKKLAVPLPIIVISKILGLPGEIFELGKKYLELIGYVKDHLNSGTEVVSRVVNLSDIEKLGYIILLLIAGNEATTNLISNSVIDFTRFNLWQRIREENLYLKAIEEALRYSPPVMRTVRKTKERVKLGDQTIEEGEYVRVWIASANRDEEVFHDGEKFIPDRNPNPHLSFGSGIHLHLGAPLARLEARIAIEEFSKRFRHIEILDTEKVPNEVLNGYKRLVVRL 364
                                    10        20        30        40  ||    80        90       100       110       120       130      |161       171       181       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363 
                                                                     43|                                                            137|                            190|                                                                                                                                                                           
                                                                      74                                                             159                             193

Chain D from PDB  Type:PROTEIN  Length:327
                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh..eee....eee.hhhhhhhhhhh...ee...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....eehhhhh.hhhhhhhhhhhhh....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....eeeeee...ee...ee....eeeeehhhhh................................hhhhhhhhhhhhhhhhhhhh...eeeeeee........eeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bv5 D   1 MYDWFSEMRKKDPVYYDGNIWQVFSYRYTKEVLNNFSKFSSDPPLHDELRSMSADIFSPQKLQTLETFIRETTRSLLDSIDPREDDIVKKLAVPLPIIVISKILGLPIEDKEKFKEWSDLVAFIFELGKKYLELIGYVKDHLNSGTEVVSRVVSNLSDIEKLGYIILLLIAGNEATTNLISNSVIDFTRFNLWQRIREENLYLKAIEEALRYSPPVMRTVRKTKERVKLDQTIEEGEYVRVWIASANRDEEVFHDGEKFIPDRNPNPHLSFGSGIHLHLGAPLARLEARIAIEEFSKRFRHIEILDTEKVPNEVLNGYKRLVVRLKS 366
                                    10        20        30        40 ||     80        90       100       110       120       130       140       150  ||   167       177       187  ||   198       208       218       228       238       248       258       269       279       289       299       309       319       329       339       349       359       
                                                                    42|                                                                             153|                          190|                                                                        267|                                                                                                 
                                                                     73                                                                              161                           192                                                                         269

Legend:		→ Mismatch	(orange background)
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	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 '\|'

(no "SCOP Domain" information available for 5BV5)

(no "CATH Domain" information available for 5BV5)

(no "Pfam Domain" information available for 5BV5)

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	Cis Peptide Bonds
		Asn A:303 - Pro A:304	[ RasMol ]
		Asn B:303 - Pro B:304	[ RasMol ]
		Asn C:303 - Pro C:304	[ RasMol ]
		Asn D:303 - Pro D:304	[ RasMol ]

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	5bv5
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(no "Related Entries Specified in the PDB File" available for 5BV5)

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Ligands, Modified Residues, Ions (3, 9)

Sites (9, 9)

SS Bonds (0, 0)

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