S100 Family: 1.20.58.100.6.1.1.1

Representative domain: 1kf6A03

Classification Lineage (1.20.58.100.6.1.1.1)

CATH Code	Level Description	Links
1	Mainly Alpha
1.20	Up-down Bundle
1.20.58	Methane Monooxygenase Hydroxylase; Chain G, domain 1
1.20.58.100		Gene3D
1.20.58.100.6
1.20.58.100.6.1
1.20.58.100.6.1.1
1.20.58.100.6.1.1.1

Summary of Non-Redundant Representatives


-	-	-	-	-	-	-	-	12

Non-Redundant Representatives (12)
Functional Families
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What is a Non-Redundant Representative?

CATH is a tree-like organisation of nodes that begins with the class node (i.e. the first branch-point of the tree) and ends with the domain nodes (i.e. the leaves of the tree). Each node below the class have a parent that they belong to, e.g. the parent of the H level (Homologous superfamily) is the T (Topology). Additionally, each node above the domains have child nodes that belong to them, e.g. the child nodes of a given H (Homologous superfamily) level are the S35 families (domains clustered at > 35% sequence identity).

S100 Count Entries in S100 Family 1.20.58.100.6.1.1.1 (12)

CATH code	Domain ID	Keywords
1.20.58.100.6.1.1.1.1	1kf6A03	flagellum assembly, electron carrier activity, flavin adenine dinucleotide binding, Benzoate degradation via CoA ligation, anaerobic respiration, Butanoate metabolism, fermentation, Fumarate reductase flavoprotein subunit, Oxidative phosphorylation, cytoplasm, Succinate dehydrogenase., membrane, Citrate cycle (TCA cycle), Escherichia coli K-12, fumarate reductase flavoprotein subunit [EC:1.3.99.1], protein binding, Two-component system, ciliary or flagellar motility, Metabolic pathways
1.20.58.100.6.1.1.1.2	1kf6M03	flavin adenine dinucleotide binding, electron carrier activity, anaerobic respiration, Benzoate degradation via CoA ligation, flagellum assembly, cytoplasm, Oxidative phosphorylation, Butanoate metabolism, Fumarate reductase flavoprotein subunit, fermentation, Citrate cycle (TCA cycle), membrane, Succinate dehydrogenase., Metabolic pathways, Two-component system, ciliary or flagellar motility, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, protein binding
1.20.58.100.6.1.1.1.3	1l0vA03	Oxidative phosphorylation, cytoplasm, Butanoate metabolism, Fumarate reductase flavoprotein subunit, fermentation, electron carrier activity, flavin adenine dinucleotide binding, Benzoate degradation via CoA ligation, anaerobic respiration, flagellum assembly, Two-component system, ciliary or flagellar motility, Metabolic pathways, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, protein binding, Citrate cycle (TCA cycle), membrane, Succinate dehydrogenase.
1.20.58.100.6.1.1.1.4	1l0vM03	fermentation, Fumarate reductase flavoprotein subunit, Butanoate metabolism, cytoplasm, Oxidative phosphorylation, flagellum assembly, anaerobic respiration, Benzoate degradation via CoA ligation, flavin adenine dinucleotide binding, electron carrier activity, protein binding, Escherichia coli K-12, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Metabolic pathways, Two-component system, ciliary or flagellar motility, Succinate dehydrogenase., membrane, Citrate cycle (TCA cycle)
1.20.58.100.6.1.1.1.5	2b76A03	electron carrier activity, flavin adenine dinucleotide binding, Benzoate degradation via CoA ligation, anaerobic respiration, flagellum assembly, Oxidative phosphorylation, cytoplasm, Butanoate metabolism, Fumarate reductase flavoprotein subunit, fermentation, Citrate cycle (TCA cycle), membrane, Succinate dehydrogenase., Two-component system, ciliary or flagellar motility, Metabolic pathways, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, protein binding
1.20.58.100.6.1.1.1.6	2b76M03	protein binding, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, Two-component system, ciliary or flagellar motility, Metabolic pathways, membrane, Succinate dehydrogenase., Citrate cycle (TCA cycle), Fumarate reductase flavoprotein subunit, fermentation, Butanoate metabolism, Oxidative phosphorylation, cytoplasm, flagellum assembly, Benzoate degradation via CoA ligation, anaerobic respiration, electron carrier activity, flavin adenine dinucleotide binding
1.20.58.100.6.1.1.1.7	1kfyA03	protein binding, Escherichia coli K-12, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Two-component system, ciliary or flagellar motility, Metabolic pathways, Succinate dehydrogenase., membrane, Citrate cycle (TCA cycle), fermentation, Fumarate reductase flavoprotein subunit, Butanoate metabolism, Oxidative phosphorylation, cytoplasm, flagellum assembly, Benzoate degradation via CoA ligation, anaerobic respiration, electron carrier activity, flavin adenine dinucleotide binding
1.20.58.100.6.1.1.1.8	1kfyM03	flavin adenine dinucleotide binding, electron carrier activity, anaerobic respiration, Benzoate degradation via CoA ligation, flagellum assembly, cytoplasm, Oxidative phosphorylation, Butanoate metabolism, Fumarate reductase flavoprotein subunit, fermentation, Citrate cycle (TCA cycle), membrane, Succinate dehydrogenase., Metabolic pathways, Two-component system, ciliary or flagellar motility, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, protein binding
1.20.58.100.6.1.1.1.9	3cirA03	Metabolic pathways, Two-component system, ciliary or flagellar motility, Escherichia coli K-12, fumarate reductase flavoprotein subunit [EC:1.3.99.1], protein binding, Citrate cycle (TCA cycle), Succinate dehydrogenase., membrane, cytoplasm, Oxidative phosphorylation, Butanoate metabolism, fermentation, Fumarate reductase flavoprotein subunit, flavin adenine dinucleotide binding, electron carrier activity, anaerobic respiration, Benzoate degradation via CoA ligation, flagellum assembly
1.20.58.100.6.1.1.1.10	3cirM03	Metabolic pathways, Two-component system, ciliary or flagellar motility, protein binding, fumarate reductase flavoprotein subunit [EC:1.3.99.1], Escherichia coli K-12, Citrate cycle (TCA cycle), membrane, Succinate dehydrogenase., cytoplasm, Oxidative phosphorylation, Fumarate reductase flavoprotein subunit, fermentation, Butanoate metabolism, anaerobic respiration, Benzoate degradation via CoA ligation, flavin adenine dinucleotide binding, electron carrier activity, flagellum assembly
1.20.58.100.6.1.1.1.11	1fumA03
1.20.58.100.6.1.1.1.12	1fumM03

The information on Functional Families (FunFams) is currently being updated and will be released by the end of March 2012. The pages will include the following features:

Multiple alignments for each functional family
Representative structure for each functional with known catalytic and interface residues highlighted, along with conserved residues predicted by scorecons
Detailed functional information on diversity and conservation within Functional families
Multi-domain architectures

In the meantime, please find a summary of information on the FunFams and protein networks within this superfamily on the Gene3D pages:

http://gene3d.biochem.ucl.ac.uk/superfamily/?accession=1.20.58.100.6.1.1.1

What is a Non-Redundant Representative?

Why can't I have a multiple structural alignment of the whole superfamily?

The simple answer is that some of the larger superfamilies in CATH comprise relatives which are very structurally diverse, having different secondary structure embellishments. Attempting to provide a global alignment of all domains in the superfamily would result in poor quality alignments. As a result, structural alignments in CATH are generated by first clustering together the structures that have at least some recognisable structural similarity using a normalised RMSD score (SIMAX = RMSDxNumber of residues in the largest domain/number of aligned residues) less than a given cutoff.

What is an Close Structural Cluster?

A Close Structural Cluster describes a cluster of two or more CATH domains that have been grouped together due to their close structural similarity (SIMAX score < 5Å where SIMAX = RMSD x Number of residues in the larger domain/number of aligned residues).

What is a Distant Structural Cluster?

A Distant Structural Cluster describes a cluster of two or CATH domains that have been grouped together with a more relaxed structural similarity threshold to investigate more distant evolutionary similarities (SIMAX score < 5Å where SIMAX = RMSD x Number of residues in the larger domain/number of aligned residues).

What is a Structural Neighbour?

The term "structural neighbour" is used here to describe two CATH domains that share a degree of structural similarity. The SSAP algorithm is used to calculate this similarity and works by generating a structure-based pairwise alignment of the two domains then scoring this alignment using a RMSD score which has been normalised by the length of the larger domain divided by the number of aligned residues (SIMAX).

S100 Family: 1.20.58.100.6.1.1.1

Classification Lineage (1.20.58.100.6.1.1.1)

Summary of Non-Redundant Representatives

What is a Non-Redundant Representative?

S100 Count Entries in S100 Family 1.20.58.100.6.1.1.1 (12)

What is a Non-Redundant Representative?

Why can't I have a multiple structural alignment of the whole superfamily?

What is an Close Structural Cluster?

What is a Distant Structural Cluster?

What is a Structural Neighbour?

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