SUPERFAMILY 1.73 HMM library and genome assignments server


GlnB-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (334)
  Mainly antiparallel beta sheets (segregated alpha and beta regions)
Fold:   Ferredoxin-like [ 54861] (55)
  alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2
Superfamily:   GlnB-like [ 54913] (4)
Families:   Prokaryotic signal transducing protein [ 54914] (3)
  Divalent ion tolerance proteins CutA (CutA1) [ 75434] (3)
  DUF190/COG1993 [ 89934]
  ATP phosphoribosyltransferase (ATP-PRTase, HisG), regulatory C-terminal domain [ 88851]


Superfamily statistics
Genomes (1,055) UniProt 15.0 PDB chains (SCOP 1.73)
Domains 2,852 3,447 21
Proteins 2,803 3,395 21


Functional annotation
General category Regulation
Detailed category Signal transduction

Function annotation of SCOP domain superfamilies
InterPro annotation
Cross references IPR011322 SSF54913 Protein matches
Abstract

This entry represents a structural domain found in the nitrogen regulatory protein PII, in ATP phosphribosyltransferases (C-terminal domain), in the divalent ion tolerance protein CutA1, and in some bacterial hypothetical proteins. This domain consists of a ferredoxin-like alpha/beta sandwich, which forms trimeric structures with orthogonally packed beta-sheets around a three-fold axis.

PII is a tetrameric protein encoded by glnB that functions as a component of the adenylation cascade involved in the regulation of GS activity [PubMed1702507]. PII helps regulate the level of glutamine synthetase in response to nitrogen source availability. In nitrogen-limiting conditions, PII is uridylylated to form PII-UMP, which allows the deadenylation of glutamine synthetase, thus activating the enzyme. Conversely, in nitrogen excess, PI-UMP is deuridylated to PII, promoting the adenylation and deactivation of glutamine synthetase [PubMed16860774].

ATP phosphoribosyltransferase is the first enzyme of the histidine pathway. It is allosterically regulated, controlling the flow of intermediates through the pathway. The C-terminal domain is the regulatory region of the protein, which binds the allosteric inhibitor histidine [PubMed14741209].

CutA1 functions in divalent ion tolerance in bacteria, plants and animals [PubMed12949080, PubMed7623666]. Divalent metal ions play key roles in all living organisms, serving as cofactors for many proteins involved in a variety of electron-transfer activities. In Escherichia coli it is thought to be involved in copper ion tolerance, excessive copper ions being toxic [PubMed17077491].


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 16 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 GlnB-like 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 16 hidden Markov models representing the GlnB-like 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 · Internal database links ]