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 (79) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,919 5,572 1
Proteins 5,880 4,767 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 0.0000000000003759 Least Informative Direct
Biological Process (BP) localization 0.0003278 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.6775 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.04456 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1944 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.0131 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.3823 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.5481 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.4369 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.2743 Least Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.000000000006504 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.00000000007603 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0.0000000005903 Moderately Informative Direct
Biological Process (BP) immune system process 0.000000004786 Moderately Informative Direct
Biological Process (BP) defense response 0.00000003542 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 0.000003023 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.000006739 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 0.0001405 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.0002392 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.0004483 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0006509 Moderately Informative Direct
Biological Process (BP) cellular localization 0.3579 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.00593 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.2005 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1012 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.005058 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.1539 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.001183 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.00158 Moderately Informative Inherited
Biological Process (BP) ion transport 0.1816 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.008976 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.1294 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.002696 Moderately Informative Inherited
Biological Process (BP) response to acid chemical 0.00000000000003082 Informative Direct
Biological Process (BP) regulation of defense response 0.000000001524 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 0.00000001391 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 0.00000003825 Informative Direct
Biological Process (BP) anion transport 0.00000008756 Informative Direct
Biological Process (BP) single-organism membrane organization 0.00001832 Informative Direct
Biological Process (BP) defense response to other organism 0.0000618 Informative Direct
Biological Process (BP) nitrogen compound transport 0.0001239 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0002366 Informative Direct
Biological Process (BP) regulation of immune response 0.0003054 Informative Direct
Biological Process (BP) immune response 0.0004118 Informative Direct
Biological Process (BP) phosphorylation 0.0008838 Informative Direct
Biological Process (BP) single-organism cellular localization 0.009043 Informative Inherited
Biological Process (BP) cellular response to hormone stimulus 0.003242 Informative Inherited
Biological Process (BP) response to bacterium 0.01582 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001715 Informative Inherited
Biological Process (BP) cellular response to external stimulus 0.4215 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.001809 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.03548 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.01294 Informative Inherited
Biological Process (BP) protein transport 0.06227 Informative Inherited
Biological Process (BP) single-organism intracellular transport 0.1176 Informative Inherited
Biological Process (BP) immune effector process 0.003771 Informative Inherited
Biological Process (BP) benzene-containing compound metabolic process 0.00000000002298 Highly Informative Direct
Biological Process (BP) phenol-containing compound metabolic process 0.0000000002271 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0.000000006191 Highly Informative Direct
Biological Process (BP) protein localization to membrane 0.000000007439 Highly Informative Direct
Biological Process (BP) regulation of reactive oxygen species metabolic process 0.000000008902 Highly Informative Direct
Biological Process (BP) cellular response to acid chemical 0.00000003123 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0.0000001907 Highly Informative Direct
Biological Process (BP) negative regulation of defense response 0.0000002222 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.00001622 Highly Informative Direct
Biological Process (BP) defense response to bacterium 0.000124 Highly Informative Direct
Biological Process (BP) response to fungus 0.0002357 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.00389 Highly Informative Inherited
Biological Process (BP) innate immune response 0.3513 Highly Informative Inherited
Molecular Function (MF) binding 0.4823 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.01771 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0.0007957 Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.007609 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 defense0.00000008356InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing0.00000001084Least InformativeDirect
DomainRepeat0.0002558Least 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 ]