SUPERFAMILY 1.75 HMM library and genome assignments server


Zinc domain conserved in yeast copper-regulated transcription factors superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Zinc domain conserved in yeast copper-regulated transcription factors [ 57878]
Superfamily:   Zinc domain conserved in yeast copper-regulated transcription factors [ 57879]
Families:   Zinc domain conserved in yeast copper-regulated transcription factors [ 57880]


Superfamily statistics
Genomes (209) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 429 0 1
Proteins 429 0 1


Functional annotation
General category Regulation
Detailed category Other regulatory function

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) regulation of metabolic process 0.0003178 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.01575 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.007516 Least Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1.243e-05 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.637e-05 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1.592e-05 Moderately Informative Direct
Biological Process (BP) homeostatic process 4.889e-09 Moderately Informative Direct
Biological Process (BP) cellular cation homeostasis 1.202e-10 Informative Direct
Biological Process (BP) metal ion homeostasis 1.011e-10 Informative Direct
Biological Process (BP) cellular transition metal ion homeostasis 2.935e-14 Highly Informative Direct
Molecular Function (MF) binding 0.005147 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 6.35e-06 Moderately Informative Direct
Molecular Function (MF) cation binding 6.896e-07 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 4.079e-09 Informative Direct
Molecular Function (MF) DNA binding 4.926e-07 Informative Direct
Molecular Function (MF) transition metal ion binding 2.351e-08 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 3.97e-09 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 2.132e-10 Highly Informative Direct

Document: GO annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionCopper0InformativeDirect
Post-translational modificationActivator5.276e-12Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001083 SSF57879 Protein matches
Abstract

Some fungal transcription factors contain an N-terminal domain, the copper fist, which seems to be involved in copper-dependent DNA-binding [PubMed8262047, PubMed8509391]. These proteins activate the transcription of the metallothionein gene in response to copper. Metallothionein maintains copper levels in yeast [PubMed3052856, PubMed8262047]. The copper fist domain, which is similar in structure to metallothionein itself, undergoes a large conformational change on copper-binding that allows DNA-binding. The domain contains a conserved array of zinc-binding residues (Cys-X2-Cys-X8-Cys-X-His) and forms a three-stranded antiparallel beta-sheet with two short helical segments that project from one end of the beta-sheet [PubMed9665167]. Conserved residues form a basic patch that may be important for DNA binding.


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) · Yeast Phenotype (YP) · 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 1 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 Zinc domain conserved in yeast copper-regulated transcription factors 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 1 hidden Markov models representing the Zinc domain conserved in yeast copper-regulated transcription factors 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) · Yeast Phenotype (YP) · UniProtKB KeyWords (KW) · Internal database links ]