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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF SUPEROXIDE DISMUTASE FROM P. MARINUS

Authors :   O. A. Asojo, E. J. Schott, G. R. Vasta, A. M. Silva

Date :   16 Jun 05 (Deposition) - 04 Jul 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.86

Chains :   Asym./Biol. Unit : A,B

Keywords :   Sod, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. A. Asojo, E. J. Schott, G. R. Vasta, A. M. Silva
Structures Of Pmsod1 And Pmsod2, Two Superoxide Dismutases From The Protozoan Parasite Perkinsus Marinus
Acta Crystallogr. , Sect. F V. 62 1072 2006
PubMed-ID: 17077482 | Reference-DOI: 10.1107/S1744309106040425
(for further references see the PDB file header)

Molecule 1 - SUPEROXIDE DISMUTASE 1
	Chains	:	A, B
	EC Number	:	1.15.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PBLUESCRIPTII
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PERKINSUS MARINUS
	Organism Taxid	:	31276

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	FE	2	Ligand/Ion	FE (III) ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:31 , HIS A:80 , ASP A:162 , HIS A:166 , HOH A:505	BINDING SITE FOR RESIDUE FE A 402
2	AC2	SOFTWARE	HIS B:31 , HIS B:80 , ASP B:162 , HIS B:166 , HOH B:497	BINDING SITE FOR RESIDUE FE B 403

(no "SS Bond" information available for 2CW2)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:5	-	Pro A:6
2	Glu A:20	-	Pro A:21
3	Gly B:5	-	Pro B:6
4	Glu B:20	-	Pro B:21

(no "SAP(SNP)/Variant" information available for 2CW2)

(no "PROSITE Motif" information available for 2CW2)

(no "Exon" information available for 2CW2)

Asymmetric/Biological 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:199
 aligned with Q8ISJ0_9ALVE | Q8ISJ0 from UniProtKB/TrEMBL  Length:226

    Alignment length:199
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217         
         Q8ISJ0_9ALVE    28 SVTGPFQCPPLPYVKNALEPHMSAETLTYHHDKHHQTYVDTLNSIAAENSTIASKTLEQIIKTETGKPFNQAAQVYNHTFFFNNLAPNGGGEPTGKIAELITRDFGSFEKFKEDFSAAAVGHFGSGWVWLIADDGKLKIVQGHDAGNPIRESKTPLMNIDVWEHAYYIDYRNARAQYVKNYWNLVNWDFVNDNVAKAGI 226
               SCOP domains d2cw2a1 A:2-89 automated matches                                                       d2cw2a2 A:90-201 automated matches                                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......................hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee....eeeeeee...hhhhh..eeeeeee.hhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cw2 A   2 SVTGPFQCPPLPYVKNALEPHMSAETLTYHHDKHHQTYVDTLNSIAAENSTIASKTLEQIIKTETGKPFNQAAQVYNHTFFFNNLAPNGGGEPTGKIAELITRDFGSFEKFKEDFSAAAVGHFGSGWVWLIADDGKLKIVQGHDAGNPIRESKTPLMNIDVWEHAYYIDYRNARAQYVKNYWNLVNWDFVNDNVAKAGI 201
                                    11        21        31        41        51 ||     62        72        82        92       102       112       122       132       142       152       162       172       182       192         
                                                                              53|                                                                                                                                                  
                                                                               55

Chain B from PDB  Type:PROTEIN  Length:196
 aligned with Q8ISJ0_9ALVE | Q8ISJ0 from UniProtKB/TrEMBL  Length:226

    Alignment length:196
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      
         Q8ISJ0_9ALVE    31 GPFQCPPLPYVKNALEPHMSAETLTYHHDKHHQTYVDTLNSIAAENSTIASKTLEQIIKTETGKPFNQAAQVYNHTFFFNNLAPNGGGEPTGKIAELITRDFGSFEKFKEDFSAAAVGHFGSGWVWLIADDGKLKIVQGHDAGNPIRESKTPLMNIDVWEHAYYIDYRNARAQYVKNYWNLVNWDFVNDNVAKAGI 226
               SCOP domains d2cw2b1 B:5-89 automated matches                                                    d2cw2b2 B:90-201 automated matches                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeeee..eeeeeeee...hhhhhh.eeeeeee.hhhhhhhhhh.hhhhhhhhhh...hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cw2 B   5 GPFQCPPLPYVKNALEPHMSAETLTYHHDKHHQTYVDTLNSIAAENSTIASKTLEQIIKTETGKPFNQAAQVYNHTFFFNNLAPNGGGEPTGKIAELITRDFGSFEKFKEDFSAAAVGHFGSGWVWLIADDGKLKIVQGHDAGNPIRESKTPLMNIDVWEHAYYIDYRNARAQYVKNYWNLVNWDFVNDNVAKAGI 201
                                    14        24        34        44        54 ||     65        75        85        95       105       115       125       135       145       155       165       175       185       195      
                                                                              56|                                                                                                                                               
                                                                               58

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 "CATH Domain" information available for 2CW2)

(no "Pfam Domain" information available for 2CW2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q8ISJ0_9ALVE | Q8ISJ0)

molecular function
	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.
	GO:0004784	superoxide dismutase activity	Catalysis of the reaction: 2 superoxide + 2 H+ = O2 + hydrogen peroxide.
biological process
	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:0019430	removal of superoxide radicals	Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
	GO:0006801	superoxide metabolic process	The chemical reactions and pathways involving superoxide, the superoxide anion O2- (superoxide free radical), or any compound containing this species.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Glu A:20 - Pro A:21	[ RasMol ]
		Glu B:20 - Pro B:21	[ RasMol ]
		Gly A:5 - Pro A:6	[ RasMol ]
		Gly B:5 - Pro B:6	[ RasMol ]

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2cw3	IRON SUPEROXIDE DISMUTASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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