S100 Family: 2.60.40.60.2.1.1.1

Representative domain: 2omzB00

Classification Lineage (2.60.40.60.2.1.1.1)

CATH Code	Level Description	Links
2	Mainly Beta
2.60	Sandwich
2.60.40	Immunoglobulin-like
2.60.40.60	Cadherins	Gene3D
2.60.40.60.2
2.60.40.60.2.1
2.60.40.60.2.1.1
2.60.40.60.2.1.1.1

Summary of Non-Redundant Representatives


-	-	-	-	-	-	-	-	7

Non-Redundant Representatives (7)
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 2.60.40.60.2.1.1.1 (7)

CATH code	Domain ID	Keywords
2.60.40.60.2.1.1.1.1	2omzB00	Adherens junction, Endometrial cancer, Thyroid cancer, cellular response to lithium ion, perinuclear region of cytoplasm, actin cytoskeleton, lateral plasma membrane, Cell adhesion molecules (CAMs), cell-cell adherens junction, Pathogenic Escherichia coli infection, Cadherin-1, Pathways in cancer, integral to membrane, apical junction complex, gamma-catenin binding, positive regulation of transcription factor import into nucleus, catenin complex, Homo sapiens, Bladder cancer, beta-catenin binding, cadherin 1, type 1, E-cadherin, Melanoma, transcription activator activity
2.60.40.60.2.1.1.1.2	2omyB00	Thyroid cancer, Endometrial cancer, actin cytoskeleton, lateral plasma membrane, perinuclear region of cytoplasm, cellular response to lithium ion, Adherens junction, Bladder cancer, gamma-catenin binding, Homo sapiens, catenin complex, positive regulation of transcription factor import into nucleus, transcription activator activity, beta-catenin binding, Melanoma, cadherin 1, type 1, E-cadherin, Cadherin-1, Pathogenic Escherichia coli infection, Cell adhesion molecules (CAMs), cell-cell adherens junction, apical junction complex, Pathways in cancer, integral to membrane
2.60.40.60.2.1.1.1.3	2omxB00	Cell adhesion molecules (CAMs), cell-cell adherens junction, Cadherin-1, Pathogenic Escherichia coli infection, Pathways in cancer, integral to membrane, apical junction complex, Homo sapiens, catenin complex, positive regulation of transcription factor import into nucleus, gamma-catenin binding, Bladder cancer, Melanoma, cadherin 1, type 1, E-cadherin, beta-catenin binding, transcription activator activity, Adherens junction, Endometrial cancer, Thyroid cancer, perinuclear region of cytoplasm, cellular response to lithium ion, lateral plasma membrane, actin cytoskeleton
2.60.40.60.2.1.1.1.4	1o6sB00	Cell adhesion molecules (CAMs), cell-cell adherens junction, Pathogenic Escherichia coli infection, Cadherin-1, Pathways in cancer, integral to membrane, apical junction complex, gamma-catenin binding, catenin complex, positive regulation of transcription factor import into nucleus, Homo sapiens, Bladder cancer, beta-catenin binding, cadherin 1, type 1, E-cadherin, Melanoma, transcription activator activity, Adherens junction, Endometrial cancer, Thyroid cancer, cellular response to lithium ion, perinuclear region of cytoplasm, actin cytoskeleton, lateral plasma membrane
2.60.40.60.2.1.1.1.5	2omuB00	Pathogenic Escherichia coli infection, Cadherin-1, Cell adhesion molecules (CAMs), cell-cell adherens junction, apical junction complex, Pathways in cancer, integral to membrane, Bladder cancer, positive regulation of transcription factor import into nucleus, catenin complex, Homo sapiens, gamma-catenin binding, transcription activator activity, cadherin 1, type 1, E-cadherin, Melanoma, beta-catenin binding, Adherens junction, Thyroid cancer, Endometrial cancer, lateral plasma membrane, actin cytoskeleton, cellular response to lithium ion, perinuclear region of cytoplasm
2.60.40.60.2.1.1.1.6	2omvB00	Endometrial cancer, Thyroid cancer, perinuclear region of cytoplasm, cellular response to lithium ion, actin cytoskeleton, lateral plasma membrane, Adherens junction, gamma-catenin binding, Homo sapiens, catenin complex, positive regulation of transcription factor import into nucleus, Bladder cancer, beta-catenin binding, Melanoma, cadherin 1, type 1, E-cadherin, transcription activator activity, Cell adhesion molecules (CAMs), cell-cell adherens junction, Cadherin-1, Pathogenic Escherichia coli infection, Pathways in cancer, integral to membrane, apical junction complex
2.60.40.60.2.1.1.1.7	2omtB00	Adherens junction, Thyroid cancer, Endometrial cancer, actin cytoskeleton, lateral plasma membrane, perinuclear region of cytoplasm, cellular response to lithium ion, Cadherin-1, Pathogenic Escherichia coli infection, Cell adhesion molecules (CAMs), cell-cell adherens junction, apical junction complex, Pathways in cancer, integral to membrane, Bladder cancer, gamma-catenin binding, Homo sapiens, positive regulation of transcription factor import into nucleus, catenin complex, transcription activator activity, beta-catenin binding, Melanoma, cadherin 1, type 1, E-cadherin

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=2.60.40.60.2.1.1.1

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: 2.60.40.60.2.1.1.1

Classification Lineage (2.60.40.60.2.1.1.1)

Summary of Non-Redundant Representatives

What is a Non-Redundant Representative?

S100 Count Entries in S100 Family 2.60.40.60.2.1.1.1 (7)

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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