SUPERFAMILY 1.75 HMM library and genome assignments server


S-adenosylmethionine decarboxylase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   S-adenosylmethionine decarboxylase [ 56275]
Superfamily:   S-adenosylmethionine decarboxylase [ 56276] (2)
Families:   S-adenosylmethionine decarboxylase [ 56277]
  Bacterial S-adenosylmethionine decarboxylase [ 111222]


Superfamily statistics
Genomes (1,416) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 2,051 7,100 11
Proteins 2,036 7,085 11


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)nitrogen compound metabolic process8.295e-050.0002444Least InformativeDirect
Biological Process (BP)biosynthetic process1.325e-059.383e-06Least InformativeDirect
Biological Process (BP)cellular nitrogen compound biosynthetic process2.719e-078.516e-07Moderately InformativeDirect
Biological Process (BP)organonitrogen compound biosynthetic process2.806e-051.089e-05Moderately InformativeDirect
Biological Process (BP)cellular biogenic amine metabolic process00InformativeDirect
Biological Process (BP)polyamine metabolic process00Highly InformativeDirect
Biological Process (BP)cellular biogenic amine biosynthetic process3.276e-082.081e-08Highly InformativeDirect
Molecular Function (MF)lyase activity00Moderately InformativeDirect
Molecular Function (MF)carbon-carbon lyase activity00InformativeDirect
Molecular Function (MF)carboxy-lyase activity00Highly InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) nitrogen compound metabolic process 0.0002444 Least Informative Direct
Biological Process (BP) biosynthetic process 9.383e-06 Least Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 8.516e-07 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 1.089e-05 Moderately Informative Direct
Biological Process (BP) cellular biogenic amine metabolic process 0 Informative Direct
Biological Process (BP) polyamine metabolic process 0 Highly Informative Direct
Biological Process (BP) cellular biogenic amine biosynthetic process 2.081e-08 Highly Informative Direct
Molecular Function (MF) lyase activity 0 Moderately Informative Direct
Molecular Function (MF) carbon-carbon lyase activity 0 Informative Direct
Molecular Function (MF) carboxy-lyase activity 0 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Lyases0Least InformativeDirect
Enzyme Commission (EC)Carbon-carbon lyases0Moderately InformativeDirect
Enzyme Commission (EC)Carboxy-lyases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Molecular functionS-adenosyl-L-methionine0InformativeDirect
Molecular functionPyruvate0Highly InformativeDirect
Molecular functionSchiff base0Highly InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationDecarboxylase0InformativeDirect
Post-translational modificationAutocatalytic cleavage0InformativeDirect
Post-translational modificationZymogen0InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)amino-acid metabolism1Least InformativeInherited
UniPathway (UP)amine and polyamine metabolism0Moderately InformativeDirect
UniPathway (UP)amino-acid degradation7.081e-05Moderately InformativeDirect
UniPathway (UP)amine and polyamine biosynthesis0InformativeDirect
UniPathway (UP)L-arginine degradation5.351e-12InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 3 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a S-adenosylmethionine decarboxylase domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 3 hidden Markov models representing the S-adenosylmethionine decarboxylase superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]