S100 Family: 3.40.50.10440.1.1.1.1

Representative domain: 1oi2A01

Classification Lineage (3.40.50.10440.1.1.1.1)

CATH Code	Level Description	Links
3	Alpha Beta
3.40	3-Layer(aba) Sandwich
3.40.50	Rossmann fold
3.40.50.10440	Dihydroxyacetone kinase; domain 1	Gene3D
3.40.50.10440.1
3.40.50.10440.1.1
3.40.50.10440.1.1.1
3.40.50.10440.1.1.1.1

Summary of Non-Redundant Representatives


-	-	-	-	-	-	-	-	8

Non-Redundant Representatives (8)
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 3.40.50.10440.1.1.1.1 (8)

CATH code	Domain ID	Keywords
3.40.50.10440.1.1.1.1.1	1oi2A01	Metabolic pathways, protein binding, Escherichia coli K-12, PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Glycerolipid metabolism, Transferring phosphorous-containing groups., cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-]
3.40.50.10440.1.1.1.1.2	1oi2B01	cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], Glycerolipid metabolism, Transferring phosphorous-containing groups., PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Metabolic pathways, protein binding, Escherichia coli K-12
3.40.50.10440.1.1.1.1.3	1uodA01	cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], Transferring phosphorous-containing groups., Glycerolipid metabolism, PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Metabolic pathways, Escherichia coli K-12, protein binding
3.40.50.10440.1.1.1.1.4	1uodB01	PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Metabolic pathways, Escherichia coli K-12, protein binding, cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], Transferring phosphorous-containing groups., Glycerolipid metabolism
3.40.50.10440.1.1.1.1.5	1oi3A01	PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Metabolic pathways, Escherichia coli K-12, protein binding, cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], Transferring phosphorous-containing groups., Glycerolipid metabolism
3.40.50.10440.1.1.1.1.6	1oi3B01	Escherichia coli K-12, protein binding, Metabolic pathways, PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Transferring phosphorous-containing groups., Glycerolipid metabolism, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], cytosol
3.40.50.10440.1.1.1.1.7	1uoeA01	PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Metabolic pathways, protein binding, Escherichia coli K-12, cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-], Glycerolipid metabolism, Transferring phosphorous-containing groups.
3.40.50.10440.1.1.1.1.8	1uoeB01	Metabolic pathways, Escherichia coli K-12, protein binding, PTS-dependent dihydroxyacetone kinase, dihydroxyacetone-binding subunit dhaK, Transferring phosphorous-containing groups., Glycerolipid metabolism, cytosol, dihydroxyacetone kinase, N-terminal domain [EC:2.7.1.-]

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=3.40.50.10440.1.1.1.1

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: 3.40.50.10440.1.1.1.1

Classification Lineage (3.40.50.10440.1.1.1.1)

Summary of Non-Redundant Representatives

What is a Non-Redundant Representative?

S100 Count Entries in S100 Family 3.40.50.10440.1.1.1.1 (8)

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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