S100 Family: 2.30.30.100.1.1.1.1

Representative domain: 1kq1H00

Classification Lineage (2.30.30.100.1.1.1.1)

CATH Code	Level Description	Links
2	Mainly Beta
2.30	Roll
2.30.30	SH3 type barrels.
2.30.30.100		Gene3D
2.30.30.100.1
2.30.30.100.1.1
2.30.30.100.1.1.1
2.30.30.100.1.1.1.1

Summary of Non-Redundant Representatives


-	-	-	-	-	-	-	-	18

Non-Redundant Representatives (18)
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 2.30.30.100.1.1.1.1 (18)

CATH code	Domain ID	Keywords
2.30.30.100.1.1.1.1.1	1kq1H00	Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1, RNA degradation
2.30.30.100.1.1.1.1.2	1kq1B00	RNA degradation, Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50
2.30.30.100.1.1.1.1.3	1kq1K00	Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, RNA degradation
2.30.30.100.1.1.1.1.4	1kq1M00	Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, RNA degradation
2.30.30.100.1.1.1.1.5	1kq1N00	Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1, RNA degradation
2.30.30.100.1.1.1.1.6	1kq1R00	RNA degradation, Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50
2.30.30.100.1.1.1.1.7	1kq1S00	RNA degradation, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, Similar to host factor-1
2.30.30.100.1.1.1.1.8	1kq1T00	Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1, RNA degradation
2.30.30.100.1.1.1.1.9	1kq1W00	RNA degradation, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1
2.30.30.100.1.1.1.1.10	1kq1A00	Similar to host factor-1, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, RNA degradation
2.30.30.100.1.1.1.1.11	1kq1I00	RNA degradation, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1
2.30.30.100.1.1.1.1.12	1kq1Y00	Similar to host factor-1, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, RNA degradation
2.30.30.100.1.1.1.1.13	1kq2H00	RNA degradation, Similar to host factor-1, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein
2.30.30.100.1.1.1.1.14	1kq2B00	RNA degradation, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, Similar to host factor-1
2.30.30.100.1.1.1.1.15	1kq2K00	Similar to host factor-1, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, RNA degradation
2.30.30.100.1.1.1.1.16	1kq2M00	Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, RNA degradation
2.30.30.100.1.1.1.1.17	1kq2A00	RNA degradation, Staphylococcus aureus subsp. aureus Mu50, host factor-I protein, Similar to host factor-1
2.30.30.100.1.1.1.1.18	1kq2I00	Similar to host factor-1, host factor-I protein, Staphylococcus aureus subsp. aureus Mu50, RNA degradation

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=2.30.30.100.1.1.1.1

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: 2.30.30.100.1.1.1.1

Classification Lineage (2.30.30.100.1.1.1.1)

Summary of Non-Redundant Representatives

What is a Non-Redundant Representative?

S100 Count Entries in S100 Family 2.30.30.100.1.1.1.1 (18)

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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