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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF BOXB WITH PHOSPHATE BOUND TO THE DIIRON CENTER

Authors :   T. Weinert, L. J. Rather, G. Fuchs, U. Ermler

Date :   27 Oct 10 (Deposition) - 01 Jun 11 (Release) - 14 Sep 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Diiron, Epoxidase, Benzoyl-Coa Binding, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. J. Rather, T. Weinert, U. Demmer, E. Bill, W. Ismail, G. Fuchs, U. Ermler
Structure And Mechanism Of The Diiron Benzoyl-Coenzyme A Epoxidase Boxb.
J. Biol. Chem. V. 286 29241 2011
PubMed-ID: 21632537 | Reference-DOI: 10.1074/JBC.M111.236893

Molecule 1 - BENZOYL-COA OXYGENASE COMPONENT B
	Chains	:	A, B
	EC Number	:	1.14.12.21
	Engineered	:	YES
	Expression System	:	AZOARCUS EVANSII
	Expression System Taxid	:	59406
	Gene	:	BOXB
	Organism Scientific	:	AZOARCUS EVANSII
	Organism Taxid	:	59406
	Synonym	:	BENZOYL-COA 2,3-DIOXYGENASE SUBUNIT B, BENZOYL-COA DIOXYGENASE OXYGENASE COMPONENT

		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 (4, 17)

No.	Name	Count	Type	Full Name
1	FE	4	Ligand/Ion	FE (III) ION
2	GOL	7	Ligand/Ion	GLYCEROL
3	OH	2	Ligand/Ion	HYDROXIDE ION
4	PO4	4	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	GOL	4	Ligand/Ion	GLYCEROL
3	OH	-1	Ligand/Ion	HYDROXIDE ION
4	PO4	2	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (2, 5)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION
2	GOL	3	Ligand/Ion	GLYCEROL
3	OH	-1	Ligand/Ion	HYDROXIDE ION
4	PO4	2	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLU A:120 , GLU A:150 , HIS A:153 , HOH A:581 , FE A:1002 , OH A:1003 , PO4 A:1004	BINDING SITE FOR RESIDUE FE A 1001
02	AC2	SOFTWARE	GLU A:150 , ASP A:211 , GLU A:240 , HIS A:243 , FE A:1001 , OH A:1003 , PO4 A:1004	BINDING SITE FOR RESIDUE FE A 1002
03	AC3	SOFTWARE	GLU A:150 , HIS A:153 , GLU A:240 , HIS A:243 , HOH A:581 , FE A:1001 , FE A:1002 , PO4 A:1004	BINDING SITE FOR RESIDUE OH A 1003
04	AC4	SOFTWARE	GLU A:120 , GLU A:150 , PHE A:193 , ASP A:211 , GLU A:240 , HOH A:581 , HOH A:605 , FE A:1001 , FE A:1002 , OH A:1003	BINDING SITE FOR RESIDUE PO4 A 1004
05	AC5	SOFTWARE	GLU B:120 , GLU B:150 , HIS B:153 , HOH B:787 , FE B:1002 , OH B:1003 , PO4 B:1004	BINDING SITE FOR RESIDUE FE B 1001
06	AC6	SOFTWARE	GLU B:150 , ASP B:211 , GLU B:240 , HIS B:243 , FE B:1001 , OH B:1003 , PO4 B:1004	BINDING SITE FOR RESIDUE FE B 1002
07	AC7	SOFTWARE	GLU B:150 , HIS B:153 , GLU B:240 , HIS B:243 , HOH B:787 , FE B:1001 , FE B:1002 , PO4 B:1004	BINDING SITE FOR RESIDUE OH B 1003
08	AC8	SOFTWARE	GLU B:120 , GLU B:150 , ASP B:211 , GLY B:214 , GLU B:240 , HOH B:582 , HOH B:711 , HOH B:787 , FE B:1001 , FE B:1002 , OH B:1003	BINDING SITE FOR RESIDUE PO4 B 1004
09	AC9	SOFTWARE	SER A:107 , ARG A:111 , ASP A:343 , ILE A:414 , SER A:415 , HOH A:546 , HOH A:556	BINDING SITE FOR RESIDUE GOL A 482
10	BC1	SOFTWARE	SER B:107 , ARG B:110 , ILE B:414 , SER B:415 , HOH B:672	BINDING SITE FOR RESIDUE GOL B 482
11	BC2	SOFTWARE	TYR A:46 , GLY A:131 , LEU A:132 , ARG A:442 , LEU A:444 , HOH A:756	BINDING SITE FOR RESIDUE GOL A 483
12	BC3	SOFTWARE	GLU B:171 , HIS B:421	BINDING SITE FOR RESIDUE GOL B 483
13	BC4	SOFTWARE	SER A:107 , ARG A:110 , ASP A:168	BINDING SITE FOR RESIDUE GOL A 484
14	BC5	SOFTWARE	LYS A:286 , THR A:429 , ASP A:432 , HOH A:574	BINDING SITE FOR RESIDUE GOL A 485
15	BC6	SOFTWARE	GLU B:41 , ASN B:42 , TYR B:46 , GLY B:131 , LEU B:132 , ARG B:442 , PHE B:472 , HOH B:768	BINDING SITE FOR RESIDUE GOL B 484
16	BC7	SOFTWARE	HIS B:396 , LYS B:398 , HOH B:612	BINDING SITE FOR RESIDUE PO4 B 485
17	BC8	SOFTWARE	HIS A:396 , LYS A:398 , HOH A:588 , HOH A:633 , HOH A:747	BINDING SITE FOR RESIDUE PO4 A 486

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

(no "Cis Peptide Bond" information available for 3PER)

(no "SAP(SNP)/Variant" information available for 3PER)

(no "PROSITE Motif" information available for 3PER)

(no "Exon" information available for 3PER)

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:477
 aligned with BOXB_AZOEV | Q9AIX7 from UniProtKB/Swiss-Prot  Length:473

    Alignment length:477
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              473        
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464        |-       
           BOXB_AZOEV     5 SERIPNNVNLNENKTLQRALEQWQPSFLNWWDDMGPENSSNYDVYLRTAVSVDPKGWADFGYVKMHDYRWGIFLAPQEGEKKITFGEHKGQDVWQEVPGEYRSTLRRIIVTQGDTEPASVEQQRHLGLTAPSLYDLRNLFQVNVEEGRHLWAMVYLLHAHFGRDGREEGEALLERRSGDEDNPRILTAFNEKTPDWLSFFMFTFITDRDGKFQLASLAESAFDPLARTCKFMLTEEAHHLFVGESGIARVIQRTCEVMKELGTDDPAKLRAAGVIDLPTLQKYLNFHYSVTSDLYGAEISSNAATYYTNGLKGRFEEEKIGDDHKLQNSEYEVMDVAGDKILTRHVPALSALNERLRDDWITDVQAGVDRWNRIPAKFGFDFRFTLPHKGFHRKIGMFADVHVSPDGRLISEAEWTHQHKNWLPTESDRLYVHSLMGRCLEPGKFANWIAAPARGINNQPVNFEYVRFN--------   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeee........eeeeeehhhhh................................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh...hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhh......hhhhh.........eeeeeee....eeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......................ee.....eehhhhhhhhhhhh..hhhhhhhhhhhh.............................ee.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3per A   5 SERIPNNVNLNENKTLQRALEQWQPSFLNWWDDMGPENSSNYDVYLRTAVSVDPKGWADFGYVKMHDYRWGIFLAPQEGEKKITFGEHKGQDVWQEVPGEYRSTLRRIIVTQGDTEPASVEQQRHLGLTAPSLYDLRNLFQVNVEEGRHLWAMVYLLHAHFGRDGREEGEALLERRSGDEDNPRILTAFNEKTPDWLSFFMFTFITDRDGKFQLASLAESAFDPLARTCKFMLTEEAHHLFVGESGIARVIQRTCEVMKELGTDDPAKLRAAGVIDLPTLQKYLNFHYSVTSDLYGAEISSNAATYYTNGLKGRFEEEKIGDDHKLQNSEYEVMDVAGDKILTRHVPALSALNERLRDDWITDVQAGVDRWNRIPAKFGFDFRFTLPHKGFHRKIGMFADVHVSPDGRLISEAEWTHQHKNWLPTESDRLYVHSLMGRCLEPGKFANWIAAPARGINNQPVNFEYVRFNWSHPQFEK 481
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       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

Chain B from PDB  Type:PROTEIN  Length:474
 aligned with BOXB_AZOEV | Q9AIX7 from UniProtKB/Swiss-Prot  Length:473

    Alignment length:474
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  473 
                                    10        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       420       430       440       450       460       470  | 
           BOXB_AZOEV     1 MINYSERIPNNVNLNENKTLQRALEQWQPSFLNWWDDMGPENSSNYDVYLRTAVSVDPKGWADFGYVKMHDYRWGIFLAPQEGEKKITFGEHKGQDVWQEVPGEYRSTLRRIIVTQGDTEPASVEQQRHLGLTAPSLYDLRNLFQVNVEEGRHLWAMVYLLHAHFGRDGREEGEALLERRSGDEDNPRILTAFNEKTPDWLSFFMFTFITDRDGKFQLASLAESAFDPLARTCKFMLTEEAHHLFVGESGIARVIQRTCEVMKELGTDDPAKLRAAGVIDLPTLQKYLNFHYSVTSDLYGAEISSNAATYYTNGLKGRFEEEKIGDDHKLQNSEYEVMDVAGDKILTRHVPALSALNERLRDDWITDVQAGVDRWNRIPAKFGFDFRFTLPHKGFHRKIGMFADVHVSPDGRLISEAEWTHQHKNWLPTESDRLYVHSLMGRCLEPGKFANWIAAPARGINNQPVNFEYVRFN-   -
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------------PaaA_PaaC-3perB01 B:95-265                                                                                                                                                 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------PaaA_PaaC-3perB02 B:95-265                                                                                                                                                 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ............hhhhhhhhhhhhhhhhhhhhhhhhhhh.......eeeeeee........eeeeeehhhhh.............................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhh....hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhh......hhhhh.........eeeeeeee..eeeeeeee...hhhhhhhhhhhhhhhhhhhhhhhhhhhh................................hhhhhhhhhhhh..hhhhhhhhhhhh.............................ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3per B   1 MINYSERIPNNVNLNENKTLQRALEQWQPSFLNWWDDMGPENSSNYDVYLRTAVSVDPKGWADFGYVKMHDYRWGIFLAPQEGEKKITFGEHKGQDVWQEVPGEYRSTLRRIIVTQGDTEPASVEQQRHLGLTAPSLYDLRNLFQVNVEEGRHLWAMVYLLHAHFGRDGREEGEALLERRSGDEDNPRILTAFNEKTPDWLSFFMFTFITDRDGKFQLASLAESAFDPLARTCKFMLTEEAHHLFVGESGIARVIQRTCEVMKELGTDDPAKLRAAGVIDLPTLQKYLNFHYSVTSDLYGAEISSNAATYYTNGLKGRFEEEKIGDDHKLQNSEYEVMDVAGDKILTRHVPALSALNERLRDDWITDVQAGVDRWNRIPAKFGFDFRFTLPHKGFHRKIGMFADVHVSPDGRLISEAEWTHQHKNWLPTESDRLYVHSLMGRCLEPGKFANWIAAPARGINNQPVNFEYVRFNW 474
                                    10        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       420       430       440       450       460       470

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 '\|'

(no "SCOP Domain" information available for 3PER)

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

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Ferritin (185)

Family: PaaA_PaaC (10)

Azoarcus evansii (3)

1a	PaaA_PaaC-3perB01	B:95-265
1b	PaaA_PaaC-3perB02	B:95-265

Asymmetric Unit(hide GO term definitions)

Chain A,B (BOXB_AZOEV | Q9AIX7)

molecular function
	GO:0051213	dioxygenase activity	Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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.
biological process
	GO:0019439	aromatic compound catabolic process	The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
	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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3per)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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	3per
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	BOXB_AZOEV \| Q9AIX7
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	1.14.12.21
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	BOXB_AZOEV \| Q9AIX7	:	3pf7 3pm5 3q1g

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 17)

Sites (17, 17)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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