SUPERFAMILY 1.75 HMM library and genome assignments server


WRKY DNA-binding domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   WRKY DNA-binding domain [ 118289]
Superfamily:   WRKY DNA-binding domain [ 118290]
Families:   WRKY DNA-binding domain [ 118291]


Superfamily statistics
Genomes (61) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 4,679 4,242 1
Proteins 3,953 3,642 1


Functional annotation
General category Regulation
Detailed category DNA-binding

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) response to stimulus 1.589e-12 Least Informative Direct
Biological Process (BP) localization 0.0002284 Least Informative Direct
Biological Process (BP) biosynthetic process 0.01265 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.001048 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.4277 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.3742 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1067 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.3473 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01265 Least Informative Inherited
Biological Process (BP) immune system process 3.054e-09 Moderately Informative Direct
Biological Process (BP) signal transduction 0.000895 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 1.267e-09 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0004567 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 0.0004369 Moderately Informative Direct
Biological Process (BP) multi-organism process 1.431e-14 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.0003592 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 1.916e-06 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 1.305e-11 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.001009 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.1167 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.005562 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.00137 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.00105 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.00358 Moderately Informative Inherited
Biological Process (BP) ion transport 0.0668 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.01173 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.07185 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.2414 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3165 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.001392 Moderately Informative Inherited
Biological Process (BP) anion transport 7.524e-08 Informative Direct
Biological Process (BP) defense response 7.787e-08 Informative Direct
Biological Process (BP) immune response 0.0003227 Informative Direct
Biological Process (BP) regulation of defense response 1.695e-08 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0006709 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0004608 Informative Direct
Biological Process (BP) regulation of immune response 0.0001277 Informative Direct
Biological Process (BP) nitrogen compound transport 0.0001685 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 3.267e-08 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 8.367e-09 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.0247 Informative Inherited
Biological Process (BP) response to bacterium 0.01623 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001268 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.001246 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.06149 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.02215 Informative Inherited
Biological Process (BP) protein transport 0.2579 Informative Inherited
Biological Process (BP) immune effector process 0.005113 Informative Inherited
Biological Process (BP) MAPK cascade 6.963e-08 Highly Informative Direct
Biological Process (BP) response to fungus 0.0003291 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 7.76e-09 Highly Informative Direct
Biological Process (BP) benzene-containing compound metabolic process 2.809e-11 Highly Informative Direct
Biological Process (BP) defense response to bacterium 1.733e-05 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 3.383e-07 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.0006845 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 0.0001865 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 8.219e-06 Highly Informative Direct
Biological Process (BP) innate immune response 0.2722 Highly Informative Inherited
Molecular Function (MF) binding 0.6025 Least Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.01298 Least Informative Inherited

Document: GO annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation0Moderately InformativeDirect
Biological processPlant defense1.489e-06InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing5.084e-09Least InformativeDirect
DomainRepeat0.0002508Least InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · 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 WRKY DNA-binding 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 1 hidden Markov models representing the WRKY DNA-binding 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 · Functional annotation · Gene Ontology (high-coverage) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]