S100 Family: 3.90.45.10.1.1.1.1

Representative domain: 1xeoA00

Classification Lineage (3.90.45.10.1.1.1.1)

CATH Code	Level Description	Links
3	Alpha Beta
3.90	Alpha-Beta Complex
3.90.45	Peptide Deformylase
3.90.45.10	Peptide Deformylase	Gene3D
3.90.45.10.1
3.90.45.10.1.1
3.90.45.10.1.1.1
3.90.45.10.1.1.1.1

Summary of Non-Redundant Representatives


-	-	-	-	-	-	-	-	46

Non-Redundant Representatives (46)
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 3.90.45.10.1.1.1.1 (46)

CATH code	Domain ID	Keywords
3.90.45.10.1.1.1.1.1	1xeoA00	zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding, protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase
3.90.45.10.1.1.1.1.2	2w3tA00	ferrous iron binding, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.3	2ai8A00	ferrous iron binding, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.4	2ai8C00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12, ferrous iron binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, zinc ion binding
3.90.45.10.1.1.1.1.5	2ai8B00	ferrous iron binding, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.6	1g2aA00	ferrous iron binding, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding
3.90.45.10.1.1.1.1.7	1g2aB00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.8	1g2aC00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.9	1xemA00	ferrous iron binding, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding
3.90.45.10.1.1.1.1.10	1bs4A00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.11	1bs4B00	Escherichia coli K-12, protein binding, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.12	1bs4C00	ferrous iron binding, zinc ion binding, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.13	1bszA00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.14	1bszB00	protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.15	1bszC00	ferrous iron binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding
3.90.45.10.1.1.1.1.16	1icjA00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12, ferrous iron binding, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification
3.90.45.10.1.1.1.1.17	1icjB00	Escherichia coli K-12, protein binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.18	1icjC00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.19	1xenA00	protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.20	2w3uA00	protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.21	1bs6A00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.22	1bs6B00	Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding, ferrous iron binding, Escherichia coli K-12, protein binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity
3.90.45.10.1.1.1.1.23	1bs6C00	zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding, protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase
3.90.45.10.1.1.1.1.24	1g27A00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding, ferrous iron binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.25	1g27B00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.26	1g27C00	N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, ferrous iron binding, protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity
3.90.45.10.1.1.1.1.27	1lruA00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, ferrous iron binding
3.90.45.10.1.1.1.1.28	1lruB00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, protein binding, Escherichia coli K-12, ferrous iron binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, zinc ion binding
3.90.45.10.1.1.1.1.29	1bs8A00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification
3.90.45.10.1.1.1.1.30	1bs8B00	Escherichia coli K-12, protein binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, ferrous iron binding
3.90.45.10.1.1.1.1.31	1bs8C00	Escherichia coli K-12, protein binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.32	3k6lA00	ferrous iron binding, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.33	3k6lB00	protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, zinc ion binding, ferrous iron binding
3.90.45.10.1.1.1.1.34	1lruC00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding, ferrous iron binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.35	3k6lC00	protein binding, Escherichia coli K-12, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, zinc ion binding, N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., ferrous iron binding
3.90.45.10.1.1.1.1.36	1bs5A00	ferrous iron binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification, zinc ion binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, protein binding, Escherichia coli K-12
3.90.45.10.1.1.1.1.37	1bs5B00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, zinc ion binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification
3.90.45.10.1.1.1.1.38	1bs5C00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.39	1bs7A00	co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, zinc ion binding, ferrous iron binding, Escherichia coli K-12, protein binding, [EC:3.5.1.88], peptide deformylase activity, Peptide deformylase
3.90.45.10.1.1.1.1.40	1bs7B00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding, ferrous iron binding, zinc ion binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification
3.90.45.10.1.1.1.1.41	1bs7C00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding, ferrous iron binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification, zinc ion binding
3.90.45.10.1.1.1.1.42	1dffA00	N-terminal protein amino acid modification, co-translational protein modification, Peptide deformylase., zinc ion binding, ferrous iron binding, protein binding, Escherichia coli K-12, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity
3.90.45.10.1.1.1.1.43	1bsjA00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, Escherichia coli K-12, protein binding, ferrous iron binding, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification
3.90.45.10.1.1.1.1.44	1bskA00	[EC:3.5.1.88], peptide deformylase activity, Peptide deformylase, protein binding, Escherichia coli K-12, ferrous iron binding, zinc ion binding, N-terminal protein amino acid modification, Peptide deformylase., co-translational protein modification
3.90.45.10.1.1.1.1.45	1defA00	Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, Escherichia coli K-12, protein binding, ferrous iron binding, zinc ion binding, co-translational protein modification, Peptide deformylase., N-terminal protein amino acid modification
3.90.45.10.1.1.1.1.46	2kmnA00	Escherichia coli K-12, protein binding, Peptide deformylase, [EC:3.5.1.88], peptide deformylase activity, zinc ion binding, Peptide deformylase., co-translational protein modification, N-terminal protein amino acid modification, ferrous iron binding

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=3.90.45.10.1.1.1.1

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: 3.90.45.10.1.1.1.1

Classification Lineage (3.90.45.10.1.1.1.1)

Summary of Non-Redundant Representatives

What is a Non-Redundant Representative?

S100 Count Entries in S100 Family 3.90.45.10.1.1.1.1 (46)

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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