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Fe,Mn superoxide dismutase (SOD), C-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Fe,Mn superoxide dismutase (SOD), C-terminal domain [ 54718]
Superfamily:   Fe,Mn superoxide dismutase (SOD), C-terminal domain [ 54719]
Families:   Fe,Mn superoxide dismutase (SOD), C-terminal domain [ 54720] (3)


Superfamily statistics
Genomes (2,766) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,521 24,877 53
Proteins 4,514 24,845 53


Functional annotation
General category Metabolism
Detailed category Redox

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) biological regulation 0.8574 Least Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.0000000002146 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.00044 Moderately Informative Direct
Biological Process (BP) oxidation-reduction process 0.0005216 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0008065 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.009262 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.001565 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.002902 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.003344 Moderately Informative Inherited
Biological Process (BP) response to oxidative stress 0 Informative Direct
Biological Process (BP) regulation of transcription, DNA-templated 0.0001369 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.002299 Informative Inherited
Biological Process (BP) aging 0 Highly Informative Direct
Biological Process (BP) detoxification 0 Highly Informative Direct
Biological Process (BP) cellular response to reactive oxygen species 0.000000000008274 Highly Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.00000004242 Highly Informative Direct
Molecular Function (MF) binding 0.01568 Least Informative Inherited
Molecular Function (MF) metal ion binding 0 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 0 Moderately Informative Direct
Molecular Function (MF) manganese ion binding 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.0000685 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.3639 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.01554 Least Informative Inherited
Cellular Component (CC) mitochondrial part 0.0000005402 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 0.1516 Moderately Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Superoxide dismutase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processStress response0.0002118InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
DomainTransit peptide0Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationAcetylation0.0009584Least InformativeDirect
Post-translational modificationNitration0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001189 SSF54719 Protein matches
Abstract

Superoxide dismutases (SODs) catalyse the conversion of superoxide radicals to molecular oxygen. Their function is to destroy the radicals that are normally produced within cells and are toxic to biological systems. Three evolutionarily distinct families of SODs are known, of which the Mn/Fe-binding family is one [PubMed3315461, PubMed3345848, PubMed1556751]. This family includes both single metal-binding SODs and cambialistic SOD, which can bind either Mn or Fe. Fe/MnSODs are ubiquitous enzymes that are responsible for the majority of SOD activity in prokaryotes, fungi, blue-green algae and mitochondria. Fe/MnSODs are found as homodimers or homotetramers.

The structure of Fe/MnSODs can be divided into two domains, an alpha N-terminal domain and an alpha/beta C-terminal domain, connected by a loop. The structure of the N-terminal domain consists of a two helices in an antiparallel hairpin, with a left-handed twist [PubMed9537987]. The structure of the C-terminal domain is of the alpha/beta type, and consists of a three-stranded antiparallel beta-sheet in the order 213, along with four helices in the arrangement alpha/beta(2)/alpha/beta/alpha(2) [PubMed9931259].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 20 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Fe,Mn superoxide dismutase (SOD), C-terminal domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 20 hidden Markov models representing the Fe,Mn superoxide dismutase (SOD), C-terminal domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]