1DO6 | pdb_00001do6

CRYSTAL STRUCTURE OF SUPEROXIDE REDUCTASE IN THE OXIDIZED STATE AT 2.0 ANGSTROM RESOLUTION

External Resource: Annotation


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
Ad1do6a_ All beta proteins Immunoglobulin-like beta-sandwich Superoxide reductase-like Superoxide reductase-like Superoxide reductase (SOR) (Pyrococcus furiosus ) [TaxId: 2261 ], SCOPe (2.08)
Bd1do6b_ All beta proteins Immunoglobulin-like beta-sandwich Superoxide reductase-like Superoxide reductase-like Superoxide reductase (SOR) (Pyrococcus furiosus ) [TaxId: 2261 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilySuperoxide reductase-like 8055345 3002044 SCOP2B (2022-06-29)
BSCOP2B SuperfamilySuperoxide reductase-like 8055345 3002044 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ACopper-binde1do6A1 A: beta barrelsX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.2)
BCopper-binde1do6B1 A: beta barrelsX: Phage tail fiber protein trimerization domainH: beta-Prism IT: beta-Prism IF: Copper-bindECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A2.60.40.730 Mainly Beta Sandwich Immunoglobulin-like SOR catalytic domainCATH (4.3.0)
B2.60.40.730 Mainly Beta Sandwich Immunoglobulin-like SOR catalytic domainCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF01880Desulfoferrodoxin (Desulfoferrodox)DesulfoferrodoxinDesulfoferrodoxins contains two types of iron: an Fe-S4 site very similar to that found in desulforedoxin from Desulfovibrio gigas and an octahedral coordinated high-spin ferrous site most probably with nitrogen/oxygen-containing ligands. Due to this ...Desulfoferrodoxins contains two types of iron: an Fe-S4 site very similar to that found in desulforedoxin from Desulfovibrio gigas and an octahedral coordinated high-spin ferrous site most probably with nitrogen/oxygen-containing ligands. Due to this rather unusual combination of active centres, this novel protein is named desulfoferrodoxin [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B
SUPEROXIDE REDUCTASE - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B
IPR051233Desulfoferrodoxin superoxide reductaseFamily
A, B
IPR036073Desulfoferrodoxin, ferrous iron-binding domain superfamilyHomologous Superfamily
A, B
IPR002742Desulfoferrodoxin, ferrous iron-binding domainDomain

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

ChainsEnzyme NameDescriptionCatalytic Residues
superoxide reductase  M-CSA #660

Neelareductase, or superoxide reductase, from the thermophilic Archaea Pyrococcus furiosus, is able to catalyse the conversion of the superoxide radical O*- into the less toxic product hydrogen peroxide. It shares this ability with a number of homologous proteins from anaerobic bacteria and archaea where the removal of the superoxide radical, a product of anaerobic respiration in these organisms, is essential for their survival. It is part of a family of mononuclear non-haem iron containing proteins, which all have the iron coordinated with a pentacoordinate 4 His Cys motif and a variable 6th ligand.

Defined by 7 residues: GLU:A-14LYS:A-15HIS:A-16HIS:A-41HIS:A-47CYS:A-111HIS:A-114
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Explore in 3D: M-CSA Motif Definition
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EC: 1.15.1.2 (UniProt)