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  Home > Genomes > Superfamily assignments for Caenorhabditis elegans 57 (pseudogenes)


Caenorhabditis elegans 57 (pseudogenes) superfamily assignments

Taxonomy
Taxonomy browser entry

Eukaryota; Opisthokonta; Metazoa; Eumetazoa; Bilateria; Protostomia; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis; Caenorhabditis elegans

Downloads
Fasta format sequences
Domain assignments

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Assignment statistics

Sequences: 561 total
287 (51 %) with assignment
294 average length
48 % amino acid coverage
Domains: 368 total
72 unique superfamilies
25 unique families
274 average length
5.1 average superfamily size
80 % formed by duplication
Domain combinations: 27 domain pairs
100 unique architectures

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Superfamily assignments

Domains

Proteins

Architectures

Families

SCOP link

Superfamilies
129 129 3 0 SCOP 81321 Family A G protein-coupled receptor-like
41 21 7 0 SCOP 49599 TRAF domain-like
15 15 2 1 SCOP 49354 PapD-like
15 9 8 0 SCOP 56436 C-type lectin-like
12 12 4 0 SCOP 54695 POZ domain
11 8 3 0 SCOP 49785 Galactose-binding domain-like
9 7 6 2 SCOP 52540 P-loop containing nucleoside triphosphate hydrolases
9 9 2 0 SCOP 81383 F-box domain
6 4 2 0 SCOP 52058 L domain-like
6 6 3 1 SCOP 56112 Protein kinase-like (PK-like)
5 5 2 0 SCOP 51092 Vitelline membrane outer protein-I (VMO-I)
5 4 3 0 SCOP 49854 Spermadhesin, CUB domain
4 4 1 0 SCOP 53756 UDP-Glycosyltransferase/glycogen phosphorylase
4 4 3 1 SCOP 53474 alpha/beta-Hydrolases
4 4 4 1 SCOP 54211 Ribosomal protein S5 domain 2-like
4 4 3 0 SCOP 52113 BRCT domain
3 3 1 0 SCOP 55550 SH2 domain
3 3 2 0 SCOP 48403 Ankyrin repeat
3 2 2 0 SCOP 90123 ABC transporter transmembrane region
3 3 3 1 SCOP 56719 Type II DNA topoisomerase
3 1 1 1 SCOP 55973 S-adenosylmethionine synthetase
3 2 2 0 SCOP 57756 Retrovirus zinc finger-like domains
3 3 2 1 SCOP 56300 Metallo-dependent phosphatases
3 3 2 0 SCOP 103473 MFS general substrate transporter
3 3 2 0 SCOP 48371 ARM repeat
2 1 1 0 SCOP 82895 TSP-1 type 1 repeat
2 2 2 0 SCOP 53098 Ribonuclease H-like
2 2 1 0 SCOP 81382 Skp1 dimerisation domain-like
2 2 1 1 SCOP 49870 Osmotin, thaumatin-like protein
2 2 2 1 SCOP 55874 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
2 2 1 0 SCOP 55797 PR-1-like
2 2 2 0 SCOP 57716 Glucocorticoid receptor-like (DNA-binding domain)
2 1 1 1 SCOP 52777 CoA-dependent acyltransferases
2 2 2 0 SCOP 52799 (Phosphotyrosine protein) phosphatases II
2 2 1 1 SCOP 50630 Acid proteases
2 2 2 1 SCOP 56399 ADP-ribosylation
2 2 1 0 SCOP 49899 Concanavalin A-like lectins/glucanases
2 2 2 0 SCOP 101690 PAZ domain
2 2 2 0 SCOP 48508 Nuclear receptor ligand-binding domain
2 2 2 2 SCOP 53383 PLP-dependent transferases
1 1 1 0 SCOP 90229 CCCH zinc finger
1 1 1 0 SCOP 51971 Nucleotide-binding domain
1 1 1 0 SCOP 51011 Glycosyl hydrolase domain
1 1 1 0 SCOP 54373 FAD-linked reductases, C-terminal domain
1 1 1 0 SCOP 48652 Tetraspanin
1 1 1 0 SCOP 82671 SEA domain
1 1 1 0 SCOP 54368 Glutamine synthetase, N-terminal domain
1 1 1 1 SCOP 47587 Domain of poly(ADP-ribose) polymerase
1 1 1 0 SCOP 142921 WGR domain-like
1 1 1 0 SCOP 54001 Cysteine proteinases
1 1 1 0 SCOP 88723 PIN domain-like
1 1 1 0 SCOP 51430 NAD(P)-linked oxidoreductase
1 1 1 1 SCOP 47113 Histone-fold
1 1 1 1 SCOP 51621 Phosphoenolpyruvate/pyruvate domain
1 1 1 0 SCOP 47060 S15/NS1 RNA-binding domain
1 1 1 0 SCOP 51695 PLC-like phosphodiesterases
1 1 1 1 SCOP 47240 Ferritin-like
1 1 1 0 SCOP 52833 Thioredoxin-like
1 1 1 1 SCOP 51735 NAD(P)-binding Rossmann-fold domains
1 1 1 0 SCOP 74650 Galactose mutarotase-like
1 1 1 0 SCOP 51645 Malate synthase G
1 1 1 0 SCOP 101898 NHL repeat
1 1 1 0 SCOP 51445 (Trans)glycosidases
1 1 1 0 SCOP 47616 GST C-terminal domain-like
1 1 1 0 SCOP 53822 Periplasmic binding protein-like I
1 1 1 1 SCOP 52467 DHS-like NAD/FAD-binding domain
1 1 1 0 SCOP 48264 Cytochrome P450
1 1 1 1 SCOP 55073 Nucleotide cyclase
1 1 1 0 SCOP 55931 Glutamine synthetase/guanido kinase
1 1 1 1 SCOP 47576 Calponin-homology domain, CH-domain
1 1 1 1 SCOP 51182 RmlC-like cupins
1 1 1 0 SCOP 50249 Nucleic acid-binding proteins

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The following superfamilies have one or more weak hits:

SCOP superfamily Multidrug efflux transporter AcrB transmembrane domain
SCOP superfamily Arabinanase/levansucrase/invertase
SCOP superfamily Tricorn protease domain 2
SCOP superfamily Phase 1 flagellin
SCOP superfamily Photosystem I subunit PsaD
SCOP superfamily Cysteine-rich domain
SCOP superfamily beta-beta-alpha zinc fingers
SCOP superfamily Hairpin loop containing domain-like
SCOP superfamily Serpins
SCOP superfamily Acyl-CoA N-acyltransferases (Nat)
SCOP superfamily Nucleotide-diphospho-sugar transferases
SCOP superfamily S-adenosyl-L-methionine-dependent methyltransferases
SCOP superfamily SGNH hydrolase
SCOP superfamily RNI-like
SCOP superfamily GroEL apical domain-like
SCOP superfamily Trypsin-like serine proteases
SCOP superfamily FMN-binding split barrel
SCOP superfamily Serum albumin-like
SCOP superfamily GTPase activation domain, GAP
SCOP superfamily EF-hand
SCOP superfamily PGBD-like
SCOP superfamily ARID-like
SCOP superfamily SARS receptor-binding domain-like
SCOP superfamily NadA-like
SCOP superfamily IpaD-like
SCOP superfamily EsxAB dimer-like

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Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.