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 3.265e-11 Least Informative Direct
Biological Process (BP) localization 0.0007225 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.001093 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.2723 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.01984 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.314 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.08476 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.3562 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02771 Least Informative Inherited
Biological Process (BP) multi-organism process 6.117e-14 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 4.219e-12 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 8.739e-10 Moderately Informative Direct
Biological Process (BP) immune system process 9.538e-09 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 8.398e-07 Moderately Informative Direct
Biological Process (BP) small molecule biosynthetic process 1.051e-05 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0002633 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0003151 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.00039 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0009815 Moderately Informative Direct
Biological Process (BP) response to organic substance 0.003209 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.06913 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.1518 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.08102 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.01074 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.003297 Moderately Informative Inherited
Biological Process (BP) ion transport 0.0468 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.01241 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.06327 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.1047 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.003502 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound biosynthetic process 6.455e-09 Informative Direct
Biological Process (BP) defense response 2.012e-08 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 7.28e-08 Informative Direct
Biological Process (BP) anion transport 1.116e-07 Informative Direct
Biological Process (BP) response to other organism 7.451e-06 Informative Direct
Biological Process (BP) regulation of response to stress 1.994e-05 Informative Direct
Biological Process (BP) regulation of immune response 0.0001326 Informative Direct
Biological Process (BP) nitrogen compound transport 0.000195 Informative Direct
Biological Process (BP) immune response 0.0002573 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0002599 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0008145 Informative Direct
Biological Process (BP) response to organic nitrogen 0.0009436 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.08549 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.01364 Informative Inherited
Biological Process (BP) response to external stimulus 0.5021 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.02015 Informative Inherited
Biological Process (BP) cellular membrane organization 0.009595 Informative Inherited
Biological Process (BP) protein transport 0.2899 Informative Inherited
Biological Process (BP) immune effector process 0.00485 Informative Inherited
Biological Process (BP) benzene-containing compound metabolic process 5.434e-11 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 1.095e-08 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 1.312e-07 Highly Informative Direct
Biological Process (BP) MAPK cascade 1.647e-07 Highly Informative Direct
Biological Process (BP) cellular membrane fusion 1.986e-06 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 5.549e-06 Highly Informative Direct
Biological Process (BP) cellular response to organic cyclic compound 0.0001145 Highly Informative Direct
Biological Process (BP) response to fungus 0.0003647 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.0009912 Highly Informative Direct
Biological Process (BP) innate immune response 0.2591 Highly Informative Inherited
Molecular Function (MF) binding 0.738 Least Informative Inherited
Molecular Function (MF) protein binding 0.1801 Moderately 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 0.08967 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 defense1.278e-06InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing3.603e-09Least InformativeDirect
DomainRepeat0.0002258Least InformativeDirect
Molecular functionDNA-binding0Moderately 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 ]