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|General category ||Metabolism|
|Detailed category ||Energy|
Document: Function annotation of SCOP domain superfamilies
Gene Ontology (high-coverage)(show details)
Highlighted in gray are those with either FDR_singleton>0.001 or FDR_all>0.001
Document: GO annotation of SCOP domains
UniProtKB KeyWords (KW)(show details)
Highlighted in gray are those with FDR_all>0.001
Document: KW annotation of SCOP domains
|Cross references ||IPR009017 SSF54511 Protein matches|
The green fluorescent-like protein family consists of fluorescent proteins and non-fluorescent chromoproteins, derived from several species of Cnidarians, as well as certain diazotrophic bacteria [11929996, 12502888]. These proteins range in their absorption wavelength maximum, and are often classified by their colour: green, yellow, red and purple-blue. These colour differences arise from changes in the structure of the chromophore, which is generated internally by auto-catalysis. The chromophore comprises Ser65-Tyr66-Gly67 in Aequorea victoria, which forms a five-member ring after its modification. In the bioluminescent organism A. victoria, GFP acts to transform the blue light emitted from aequorin into green light. However, most organisms with GFP-like molecules are not bioluminescent, and in some cases are not even fluorescent. These proteins all display a beta-can structure, which surrounds the chromophore and acts to shield it against quenching agents.
The G2 domain of nidogen contains a beta-can structure that exhibits extraordinary similarity to GFP, even though their sequences show only low sequence identity . Nidogen is a component of basement membranes, whose interactions with other basement membrane proteins contribute to the assembly and function of the basement membrane. The G2 domain serves as a protein-binding module. The structure is similar enough between GFP and the G2 domain of nidogen to suggest a common ancestral origin.
More information about this protein can be found at Protein of the Month: Green Fluorescent Protein.
PDBeMotif information about ligands, sequence and structure motifs
Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · 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 8 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 GFP-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 8 hidden Markov models representing the GFP-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 · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]