SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain [ 52417]
Superfamily:   Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain [ 52418]
Families:   Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain [ 52419] (3)


Superfamily statistics
Genomes (2,754) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 4,828 27,723 6
Proteins 4,824 27,701 6


Functional annotation
General category Metabolism
Detailed category Nucleotide 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) cellular aromatic compound metabolic process 0.0000000000002392 Least Informative Direct
Biological Process (BP) cellular nitrogen compound metabolic process 0.00000294 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0000001685 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0002704 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.0000007888 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0000000000008916 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.2111 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.2206 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.2539 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0.000331 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.01223 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.01773 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.0761 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.04304 Moderately Informative Inherited
Biological Process (BP) amine metabolic process 0.0000006596 Informative Direct
Biological Process (BP) alpha-amino acid biosynthetic process 0.01139 Informative Inherited
Biological Process (BP) tryptophan metabolic process 0.00001262 Highly Informative Direct
Biological Process (BP) aromatic amino acid family biosynthetic process 0.000000000045 Highly Informative Direct
Biological Process (BP) cellular biogenic amine biosynthetic process 0.0000000000009054 Highly Informative Direct
Biological Process (BP) indole-containing compound biosynthetic process 0.0000000007672 Highly Informative Direct
Molecular Function (MF) transferase activity 0.0000000000001591 Least Informative Direct
Molecular Function (MF) transferase activity, transferring glycosyl groups 0 Informative Direct
Molecular Function (MF) transferase activity, transferring pentosyl groups 0.0000000000939 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)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with a phosphate group as acce1InformativeInherited
Enzyme Commission (EC)Thymidine phosphorylase0Highly InformativeDirect
Enzyme Commission (EC)Pyrimidine-nucleoside phosphorylase0.000003315Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAmino-acid biosynthesis0Moderately InformativeDirect
Biological processAromatic amino acid biosynthesis0Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionMagnesium0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000312 SSF52418 Protein matches
Abstract

The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, ) and thymidine phosphorylase . All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · 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 6 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 Nucleoside phosphorylase/phosphoribosyltransferase catalytic 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 6 hidden Markov models representing the Nucleoside phosphorylase/phosphoribosyltransferase catalytic 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]