SUPERFAMILY 1.75 HMM library and genome assignments server

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D-ribose-5-phosphate isomerase (RpiA), lid domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   D-ribose-5-phosphate isomerase (RpiA), lid domain [ 75445]
Families:   D-ribose-5-phosphate isomerase (RpiA), lid domain [ 75446]


Superfamily statistics
Genomes (2,201) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 2,555 11,152 4
Proteins 2,555 11,148 4


Functional annotation
General category Metabolism
Detailed category Carbohydrate metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism metabolic process 0.000008049 Least Informative Direct
Biological Process (BP) primary metabolic process 0.00004121 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.0004649 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.0005171 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.0009612 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.004299 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.08508 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.06739 Least Informative Inherited
Biological Process (BP) cofactor metabolic process 0.00000003155 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.0000002843 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.0001166 Moderately Informative Direct
Biological Process (BP) cellular aldehyde metabolic process 0.00000000000001763 Informative Direct
Biological Process (BP) oxidoreduction coenzyme metabolic process 0.00000000000002102 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0.000000000002253 Informative Direct
Biological Process (BP) NADP metabolic process 0 Highly Informative Direct
Biological Process (BP) glucose 6-phosphate metabolic process 0.00000000000002436 Highly Informative Direct
Biological Process (BP) glyceraldehyde-3-phosphate metabolic process 0.00000000000002769 Highly Informative Direct
Molecular Function (MF) isomerase activity 0 Moderately Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity 0 Informative Direct
Molecular Function (MF) intramolecular oxidoreductase activity, interconverting aldoses and ketoses 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)Isomerases0Least InformativeDirect
Enzyme Commission (EC)Intramolecular oxidoreductases0Moderately InformativeDirect
Enzyme Commission (EC)Interconverting aldoses and ketoses, and related c0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationIsomerase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

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

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 4 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 D-ribose-5-phosphate isomerase (RpiA), lid domain 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 4 hidden Markov models representing the D-ribose-5-phosphate isomerase (RpiA), lid domain 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-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]