2A99 - JenaLib

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Title :   CRYSTAL STRUCTURE OF RECOMBINANT CHICKEN SULFITE OXIDASE AT RESTING STATE

Authors :   E. Karakas, H. L. Wilson, T. N. Graf, S. Xiang, S. Jaramillo-Busquets, K. V. Rajagopalan, C. Kisker

Date :   11 Jul 05 (Deposition) - 02 Aug 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Sulfite Oxidase; Molybdopterin; Molybdenum, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Karakas, H. L. Wilson, T. N. Graf, S. Xiang, S. Jaramillo-Busquets, K. V. Rajagopalan, C. Kisker
Structural Insights Into Sulfite Oxidase Deficiency
J. Biol. Chem. V. 280 33506 2005
PubMed-ID: 16048997 | Reference-DOI: 10.1074/JBC.M505035200

Molecule 1 - SULFITE OXIDASE
	Cellular Location	:	MITOCHONDRIAL INTERMEMBRANE SPACE
	Chains	:	A
	EC Number	:	1.8.3.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC99A
	Expression System Strain	:	TP1000
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC CORE DOMAIN AND C TERMINAL DIMERIZATION DOMAIN
	Gene	:	SUOX
	Organ	:	LIVER
	Organelle	:	MITOCHONDRION
	Organism Common	:	CHICKEN
	Organism Scientific	:	GALLUS GALLUS
	Organism Taxid	:	9031
	Other Details	:	THE GENE IS CHEMICALLY SYNTHESIZED BASED ON THE PROTEIN SEQUENCE OF SULFITE OXIDASE FROM GALLUS GALLUS

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 4)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	GOL	1	Ligand/Ion	GLYCEROL
3	MO	1	Ligand/Ion	MOLYBDENUM ATOM
4	MTE	1	Ligand/Ion	PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	GOL	2	Ligand/Ion	GLYCEROL
3	MO	-1	Ligand/Ion	MOLYBDENUM ATOM
4	MTE	2	Ligand/Ion	PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:190 , TRP A:204 , HOH A:2537 , HOH A:2559	BINDING SITE FOR RESIDUE CL A 502
2	AC2	SOFTWARE	PHE A:135 , PHE A:136 , THR A:137 , ARG A:138 , HIS A:140 , CYS A:185 , ASP A:244 , TYR A:252 , HIS A:283 , ARG A:288 , GLY A:296 , ALA A:297 , SER A:299 , VAL A:300 , LYS A:301 , TRP A:302 , TYR A:322 , MO A:1501 , HOH A:2502	BINDING SITE FOR RESIDUE MTE A 501
3	AC3	SOFTWARE	CYS A:185 , MTE A:501 , HOH A:2501 , HOH A:2502	BINDING SITE FOR RESIDUE MO A 1501
4	AC4	SOFTWARE	PRO A:101 , PRO A:102 , ARG A:103 , GLN A:112	BINDING SITE FOR RESIDUE GOL A 1001

(no "SS Bond" information available for 2A99)

Asymmetric Unit

No.	Residues
1	Lys A:113	-	Pro A:114
2	Phe A:285	-	Pro A:286
3	Gln A:353	-	Pro A:354

(no "SAP(SNP)/Variant" information available for 2A99)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MOLYBDOPTERIN_EUK	PS00559	Eukaryotic molybdopterin oxidoreductases signature.	SUOX_CHICK	157-192	1	A:157-192

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MOLYBDOPTERIN_EUK	PS00559	Eukaryotic molybdopterin oxidoreductases signature.	SUOX_CHICK	157-192	2	A:157-192

(no "Exon" information available for 2A99)

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:372
 aligned with SUOX_CHICK | P07850 from UniProtKB/Swiss-Prot  Length:459

    Alignment length:372
                                                                                                                                                                                                                                                                                                                                                                                                      459       
                                   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    |    -  
           SUOX_CHICK    95 DPFAGDPPRHPGLRVNSQKPFNAEPPAELLAERFLTPNELFFTRNHLPVPAVEPSSYRLRVDGPGGRTLSLSLAELRSRFPKHEVTATLQCAGNRRSEMSRVRPVKGLPWDIGAISTARWGGASLRDVLLHAGFPEELQGGEHVCFEGLDADPGGAPYGASIPYGRALSPAADVLLAYEMNGTELPRDHRFPVRVVVPGVVGARSVKWLRRVAVSPDESPSRWQQNDYKGFSPCVDWDTVDYRTAPAIQELPVQSAVTQPRPGAAVPPGELTVKGYAWSGGGREVVRVDVSLDGGRTWKVARLMGDKAPPGRAWAWALWELTVPVEAGTELEIVCKAVDSSYNVQPDSVAPIWNLRGVLSTAWHR-------   -
               SCOP domains d2a99a2 A:95-343 Sulfite oxidase, middle catalytic domain                                                                                                                                                                                                d2a99a1 A:344-466 Sulfite oxidase, C-terminal domain                                                                        SCOP domains
               CATH domains 2a99A01 A:95-343 Sulfite Oxidase; Chain A, domain 2                                                                                                                                                                                                      2a99A02 A:344-466  [code=2.60.40.650, no name defined]                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .............eeee....eee.hhhhhh...........ee.............eeeee.....eeeeehhhhhhhh..eeeeeeee....hhhhhhhhh...........eeeeeeeeeehhhhhhhh..........eeeeeeeee.....eeeeeeehhhhhh.....eeeeee..ee.hhhhh...eee....hhhhh...eeeeeee.....hhhhhh..............hhhhh........eeeeee.....ee..eeeeeeeeee......eeeeeee.......ee.eee............eeeeeeeee....eeeeeeeeee.........hhhhh..........eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------MOLYBDOPTERIN_EUK  PDB: A:157-192   ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2a99 A  95 DPFAGDPPRHPGLRVNSQKPFNAEPPAELLAERFLTPNELFFTRNHLPVPAVEPSSYRLRVDGPGGGTLSLSLAELRSRFPKHEVTATLQCAGNRRSEMSRVRPVKGLPWDIGAISTARWGGARLRDVLLHAGFPEELQGEWHVCFEGLDADPGGAPYGASIPYGRALSPAADVLLAYEMNGTELPRDHGFPVRVVVPGVVGARSVKWLRRVAVSPDESPSHWQQNDYKGFSPCVDWDTVDYRTAPAIQELPVQSAVTQPRPGAAVPPGELTVKGYAWSGGGREVVRVDVSLDGGRTWKVARLMGDKAPPGRAWAWALWELTVPVEAGTELEIVCKAVDSSYNVQPDSVAPIWNLRGVLSTAWHRVRVSVQD 466
                                   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

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

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Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Complex (3881)

Topology: Sulfite Oxidase; Chain A, domain 2 (11)

Homologous Superfamily: Sulfite Oxidase; Chain A, domain 2 (11)

Chicken (Gallus gallus) (6)

2a99A01

A:95-343

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: [code=2.60.40.650, no name defined] (9)

Chicken (Gallus gallus) (6)

2a99A02

A:344-466

(no "Pfam Domain" information available for 2A99)

Asymmetric Unit(hide GO term definitions)

Chain A (SUOX_CHICK | P07850)

molecular function
	GO:0020037	heme binding	Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0030151	molybdenum ion binding	Interacting selectively and non-covalently with molybdenum (Mo) ions.
	GO:0043546	molybdopterin cofactor binding	Interacting selectively and non-covalently with the molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.
	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:0008482	sulfite oxidase activity	Catalysis of the reaction: H(2)O + O(2) + sulfite = H(2)O(2) + H(+) + sulfate.
biological process
	GO:0042128	nitrate assimilation	The nitrogen metabolic process that encompasses the uptake of nitrate from the environment and reduction to ammonia, and results in the incorporation of nitrogen derived from nitrate into cellular substances.
	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:0006790	sulfur compound metabolic process	The chemical reactions and pathways involving the nonmetallic element sulfur or compounds that contain sulfur, such as the amino acids methionine and cysteine or the tripeptide glutathione.
cellular component
	GO:0005758	mitochondrial intermembrane space	The region between the inner and outer lipid bilayers of the mitochondrial envelope.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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	Cis Peptide Bonds
		Gln A:353 - Pro A:354	[ RasMol ]
		Lys A:113 - Pro A:114	[ RasMol ]
		Phe A:285 - Pro A:286	[ RasMol ]

Biological Unit
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	2a99
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	1.8.3.1
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	SUOX_CHICK \| P07850	:	1sox 2a9a 2a9b 2a9c 2a9d 3hbg 3hbp 3hbq 3r18 3r19

2a9a	WILD TYPE ENZYME WITH THE BOUND PRODUCT
2a9b	R138Q MUTANT AT RESTING STATE
2a9c	R138Q MUTANT WITH THE BOUND PRODUCT
2a9d	SAME PROTEIN WITH AN ARG AT RESIDUE 161

Description

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Chains, Units

Ligands, Modified Residues, Ions (4, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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