1T87 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE FERROUS CO-BOUND CYTOCHROME P450CAM (C334A)

Authors :   S. Nagano, T. Tosha, K. Ishimori, I. Morishima, T. L. Poulos

Date :   11 May 04 (Deposition) - 25 May 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

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

Reference :   S. Nagano, T. Tosha, K. Ishimori, I. Morishima, T. L. Poulos
Crystal Structure Of The Cytochrome P450Cam Mutant That Exhibits The Same Spectral Perturbations Induced By Putidaredoxin Binding.
J. Biol. Chem. V. 279 42844 2004
PubMed-ID: 15269210 | Reference-DOI: 10.1074/JBC.M404217200
(for further references see the PDB file header)

Molecule 1 - CYTOCHROME P450-CAM
	Chains	:	A, B
	EC Number	:	1.14.15.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PT7
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	CAMC, CYP101
	Mutation	:	YES
	Organism Scientific	:	PSEUDOMONAS PUTIDA
	Organism Taxid	:	303
	Synonym	:	CAMPHOR 5-MONOOXYGENASE, P450CAM

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 9)

No.	Name	Count	Type	Full Name
1	CAM	2	Ligand/Ion	CAMPHOR
2	CMO	1	Ligand/Ion	CARBON MONOXIDE
3	HEM	2	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	K	3	Ligand/Ion	POTASSIUM ION
5	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	CAM	1	Ligand/Ion	CAMPHOR
2	CMO	-1	Ligand/Ion	CARBON MONOXIDE
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	K	-1	Ligand/Ion	POTASSIUM ION
5	TRS	-1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Biological Unit 2 (4, 4)

No.	Name	Count	Type	Full Name
1	CAM	1	Ligand/Ion	CAMPHOR
2	CMO	1	Ligand/Ion	CARBON MONOXIDE
3	HEM	1	Ligand/Ion	PROTOPORPHYRIN IX CONTAINING FE
4	K	-1	Ligand/Ion	POTASSIUM ION
5	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:84 , GLY A:93 , GLU A:94 , TYR A:96 , HOH A:1943	BINDING SITE FOR RESIDUE K A 1515
2	AC2	SOFTWARE	PRO A:15 , PRO A:16 , VAL A:18 , GLU A:20 , HOH A:2037 , THR B:217	BINDING SITE FOR RESIDUE K A 1715
3	AC3	SOFTWARE	GLU B:84 , GLY B:93 , GLU B:94 , TYR B:96	BINDING SITE FOR RESIDUE K B 2515
4	AC4	SOFTWARE	PRO A:100 , THR A:101 , GLN A:108 , ARG A:112 , LEU A:245 , GLY A:248 , GLY A:249 , THR A:252 , ASP A:297 , ARG A:299 , GLN A:322 , THR A:349 , PHE A:350 , GLY A:351 , HIS A:355 , CYS A:357 , GLY A:359 , HOH A:1728 , HOH A:1740	BINDING SITE FOR RESIDUE HEM A 1417
5	AC5	SOFTWARE	PRO B:100 , THR B:101 , GLN B:108 , ARG B:112 , LEU B:245 , GLY B:248 , GLY B:249 , THR B:252 , ASP B:297 , ARG B:299 , GLN B:322 , THR B:349 , PHE B:350 , GLY B:351 , HIS B:355 , CYS B:357 , GLY B:359 , CMO B:2420 , HOH B:2548 , HOH B:2594	BINDING SITE FOR RESIDUE HEM B 2417
6	AC6	SOFTWARE	GLY B:248 , THR B:252 , HEM B:2417 , CAM B:2422	BINDING SITE FOR RESIDUE CMO B 2420
7	AC7	SOFTWARE	PHE A:87 , TYR A:96 , VAL A:295	BINDING SITE FOR RESIDUE CAM A 1422
8	AC8	SOFTWARE	PHE B:87 , TYR B:96 , THR B:101 , LEU B:244 , VAL B:247 , VAL B:295 , ILE B:395 , CMO B:2420	BINDING SITE FOR RESIDUE CAM B 2422
9	AC9	SOFTWARE	GLU A:107 , HOH A:1739 , PRO B:268 , ARG B:271 , GLN B:272 , ILE B:275 , PRO B:379 , ASP B:380 , HOH B:2555	BINDING SITE FOR RESIDUE TRS B 2430

(no "SS Bond" information available for 1T87)

Asymmetric Unit

No.	Residues
1	Ile A:88	-	Pro A:89
2	Ile A:99	-	Pro A:100
3	Pro A:105	-	Pro A:106
4	Ile B:88	-	Pro B:89
5	Ile B:99	-	Pro B:100
6	Pro B:105	-	Pro B:106

(no "SAP(SNP)/Variant" information available for 1T87)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTOCHROME_P450	PS00086	Cytochrome P450 cysteine heme-iron ligand signature.	CPXA_PSEPU	351-360	2	A:350-359 B:350-359

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTOCHROME_P450	PS00086	Cytochrome P450 cysteine heme-iron ligand signature.	CPXA_PSEPU	351-360	1	A:350-359 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CYTOCHROME_P450	PS00086	Cytochrome P450 cysteine heme-iron ligand signature.	CPXA_PSEPU	351-360	1	- B:350-359

(no "Exon" information available for 1T87)

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:407
 aligned with CPXA_PSEPU | P00183 from UniProtKB/Swiss-Prot  Length:415

    Alignment length:407
                                    18        28        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       
           CPXA_PSEPU     9 NANLAPLPPHVPEHLVFDFDMYNPSNLSAGVQEAWAVLQESNVPDLVWTRCNGGHWIATRGQLIREAYEDYRHFSSECPFIPREAGEAYDFIPTSMDPPEQRQFRALANQVVGMPVVDKLENRIQELACSLIESLRPQGQCNFTEDYAEPFPIRIFMLLAGLPEEDIPHLKYLTDQMTRPDGSMTFAEAKEALYDYLIPIIEQRRQKPGTDAISIVANGQVNGRPITSDEAKRMCGLLLVGGLDTVVNFLSFSMEFLAKSPEHRQELIERPERIPAACEELLRRFSLVADGRILTSDYEFHGVQLKKGDQILLPQMLSGLDERENACPMHVDFSRQKVSHTTFGHGSHLCLGQHLARREIIVTLKEWLTRIPDFSIAPGAQIQHKSGIVSGVQALPLVWDPATTKAV 415
               SCOP domains d1t87a_ A: Cytochrome P450-CAM                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 1t87A00 A:8-414 Cytochrome p450                                                                                                                                                                                                                                                                                                                                                                                         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhh.........hhhhhhhhhhhhhhh.....eeeehhhhheeee.hhhhhhhhhhh...ee......hhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeehhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.....eeee...eee..eee....eee.hhhhhhhh.......................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee.......ee.....ee...eee.hhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CYTOCHROME------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t87 A   8 NANLAPLPPHVPEHLVFDFDMYNPSNLSAGVQEAWAVLQESNVPDLVWTRCNGGHWIATRGQLIREAYEDYRHFSSECPFIPREAGEAYDFIPTSMDPPEQRQFRALANQVVGMPVVDKLENRIQELACSLIESLRPQGQCNFTEDYAEPFPIRIFMLLAGLPEEDIPHLKYLTDQMTRPDGSMTFAEAKEALYDYLIPIIEQRRQKPGTDAISIVANGQVNGRPITSDEAKRMCGLLLVGGLDTVVNFLSFSMEFLAKSPEHRQELIERPERIPAACEELLRRFSLVADGRILTSDYEFHGVQLKKGDQILLPQMLSGLDERENAAPMHVDFSRQKVSHTTFGHGSHLCLGQHLARREIIVTLKEWLTRIPDFSIAPGAQIQHKSGIVSGVQALPLVWDPATTKAV 414
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407

Chain B from PDB  Type:PROTEIN  Length:405
 aligned with CPXA_PSEPU | P00183 from UniProtKB/Swiss-Prot  Length:415

    Alignment length:405
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410     
           CPXA_PSEPU    11 NLAPLPPHVPEHLVFDFDMYNPSNLSAGVQEAWAVLQESNVPDLVWTRCNGGHWIATRGQLIREAYEDYRHFSSECPFIPREAGEAYDFIPTSMDPPEQRQFRALANQVVGMPVVDKLENRIQELACSLIESLRPQGQCNFTEDYAEPFPIRIFMLLAGLPEEDIPHLKYLTDQMTRPDGSMTFAEAKEALYDYLIPIIEQRRQKPGTDAISIVANGQVNGRPITSDEAKRMCGLLLVGGLDTVVNFLSFSMEFLAKSPEHRQELIERPERIPAACEELLRRFSLVADGRILTSDYEFHGVQLKKGDQILLPQMLSGLDERENACPMHVDFSRQKVSHTTFGHGSHLCLGQHLARREIIVTLKEWLTRIPDFSIAPGAQIQHKSGIVSGVQALPLVWDPATTKAV 415
               SCOP domains d1t87b_ B: Cytochrome P450-CAM                                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 1t87B00 B:10-414 Cytochrome p450                                                                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhh.........hhhhhhhhhhhhhhh.....eeeehhhhheeee.hhhhhhhhhhh...ee......hhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeehhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh....eeeee...eee..eee....eeee...hhhhh.......................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee.......ee.....ee...eee.hhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CYTOCHROME------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t87 B  10 NLAPLPPHVPEHLVFDFDMYNPSNLSAGVQEAWAVLQESNVPDLVWTRCNGGHWIATRGQLIREAYEDYRHFSSECPFIPREAGEAYDFIPTSMDPPEQRQFRALANQVVGMPVVDKLENRIQELACSLIESLRPQGQCNFTEDYAEPFPIRIFMLLAGLPEEDIPHLKYLTDQMTRPDGSMTFAEAKEALYDYLIPIIEQRRQKPGTDAISIVANGQVNGRPITSDEAKRMCGLLLVGGLDTVVNFLSFSMEFLAKSPEHRQELIERPERIPAACEELLRRFSLVADGRILTSDYEFHGVQLKKGDQILLPQMLSGLDERENAAPMHVDFSRQKVSHTTFGHGSHLCLGQHLARREIIVTLKEWLTRIPDFSIAPGAQIQHKSGIVSGVQALPLVWDPATTKAV 414
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409

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 Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

)

Protein Domains( (-)

)

Organisms( (-)

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Class: All alpha proteins (14657)

Fold: Cytochrome P450 (480)

Superfamily: Cytochrome P450 (480)

Family: Cytochrome P450 (323)

Protein domain: Cytochrome P450-CAM (108)

Pseudomonas putida [TaxId: 303] (108)

1a	d1t87a_	A:
1b	d1t87b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Cytochrome p450 (271)

Homologous Superfamily: Cytochrome p450 (271)

Pseudomonas putida. Organism_taxid: 303. (36)

1a	1t87A00	A:8-414
1b	1t87B00	B:10-414

(no "Pfam Domain" information available for 1T87)

Asymmetric Unit(hide GO term definitions)

Chain A,B (CPXA_PSEPU | P00183)

molecular function
	GO:0018683	camphor 5-monooxygenase activity	Catalysis of the reaction: (+)-camphor + putidaredoxin + O2 = (+)-exo-5-hydroxycamphor + oxidized putidaredoxin + H2O.
	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.
biological process
	GO:0019383	(+)-camphor catabolic process	The chemical reactions and pathways resulting in the breakdown of (+)-camphor, a bicyclic monoterpene ketone.
	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.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	Cis Peptide Bonds
		Ile A:88 - Pro A:89	[ RasMol ]
		Ile A:99 - Pro A:100	[ RasMol ]
		Ile B:88 - Pro B:89	[ RasMol ]
		Ile B:99 - Pro B:100	[ RasMol ]
		Pro A:105 - Pro A:106	[ RasMol ]
		Pro B:105 - Pro B:106	[ RasMol ]

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	1t87
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1t85	CRYSTAL STRUCTURE OF THE FERROUS CO-BOUND CYTOCHROME P450CAM MUTANT (L358P/C334A)
1t86	CRYSTAL STRUCTURE OF THE FERROUS CYTOCHROME P450CAM MUTANT (L358P/C334A)
1t88	CRYSTAL STRUCTURE OF THE FERROUS CYTOCHROME P450CAM (C334A)

Description

Compounds

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Ligands, Modified Residues, Ions (5, 9)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (6, 6)

Sequence-Structure Mapping

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