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Duplicated hybrid motif superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Barrel-sandwich hybrid [ 51229] (4)
Superfamily:   Duplicated hybrid motif [ 51261] (2)
Families:   Glucose permease-like [ 51262] (2)
  Peptidoglycan hydrolase LytM [ 102006]


Superfamily statistics
Genomes (2,426) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 12,698 119,079 5
Proteins 12,663 118,404 5


Functional annotation
General category Metabolism
Detailed category Carbohydrate metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.000001515Least InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect
Enzyme Commission (EC)Protein-N(pi)-phosphohistidine--sugar phosphotrans0Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.0000000003566Least InformativeDirect
Enzyme Commission (EC)Hydrolases0.03372Least InformativeInherited
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.000000000001991Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.000000003285Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR011055 SSF51261 Protein matches
Abstract

The duplicated hybrid motif is a structural motif that is found in certain glucose-permease-like enzymes, and consists of a half-barrel beta-sheet of eight strands that is sandwiched with two 3-stranded beta-sheets. Enzymes displaying this motif include domain IIa of the glucose-specific permease from bacteria , which is part of the phosphoenolpyruvate:sugar phosphotransfer system (PTS), a bacterial and mycoplasma system responsible for the uptake of some sugars and their concomitant phosphorylation [PubMed9705652].

This structural motif is also found in peptidoglycan hydrolase LytM, a member of peptidase family M23, although it contains an extra N-terminal, non-conserved beta-sheet subdomain.


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

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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 5 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 Duplicated hybrid motif 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 5 hidden Markov models representing the Duplicated hybrid motif 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 · Enzyme Commission (EC) · Enzyme Commission (EC) · Internal database links ]