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 3.203e-13 Least Informative Direct
Biological Process (BP) localization 0.0002242 Least Informative Direct
Biological Process (BP) biosynthetic process 0.01295 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.00106 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.3661 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.4188 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1502 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.6211 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01334 Least Informative Inherited
Biological Process (BP) multi-organism process 2.447e-14 Moderately Informative Direct
Biological Process (BP) response to oxygen-containing compound 4.658e-12 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 5.481e-10 Moderately Informative Direct
Biological Process (BP) immune system process 4.708e-09 Moderately Informative Direct
Biological Process (BP) organic hydroxy compound metabolic process 1.946e-06 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.0003461 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.000405 Moderately Informative Direct
Biological Process (BP) signal transduction 0.0007025 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0009808 Moderately Informative Direct
Biological Process (BP) single-organism biosynthetic process 0.001053 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.1479 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.004452 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.001287 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.00358 Moderately Informative Inherited
Biological Process (BP) ion transport 0.06807 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.01224 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.07482 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.2306 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3113 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.001338 Moderately Informative Inherited
Biological Process (BP) regulation of defense response 1.419e-09 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 7.923e-09 Informative Direct
Biological Process (BP) monocarboxylic acid biosynthetic process 3.86e-08 Informative Direct
Biological Process (BP) anion transport 7.066e-08 Informative Direct
Biological Process (BP) defense response 8.871e-08 Informative Direct
Biological Process (BP) response to other organism 1.093e-05 Informative Direct
Biological Process (BP) negative regulation of response to stimulus 0.0001502 Informative Direct
Biological Process (BP) nitrogen compound transport 0.0001588 Informative Direct
Biological Process (BP) regulation of immune response 0.0003191 Informative Direct
Biological Process (BP) immune response 0.0004288 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0005254 Informative Direct
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.03358 Informative Inherited
Biological Process (BP) response to nutrient levels 0.001449 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.001929 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.04106 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.01301 Informative Inherited
Biological Process (BP) protein transport 0.2602 Informative Inherited
Biological Process (BP) immune effector process 0.003692 Informative Inherited
Biological Process (BP) benzene-containing compound metabolic process 2.381e-11 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 5.863e-09 Highly Informative Direct
Biological Process (BP) regulation of reactive oxygen species metabolic process 9.982e-09 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 2.947e-08 Highly Informative Direct
Biological Process (BP) MAPK cascade 5.739e-08 Highly Informative Direct
Biological Process (BP) membrane fusion 1.899e-06 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 1.366e-05 Highly Informative Direct
Biological Process (BP) defense response to bacterium 2.008e-05 Highly Informative Direct
Biological Process (BP) response to fungus 0.000256 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.002147 Highly Informative Inherited
Biological Process (BP) innate immune response 0.2852 Highly Informative Inherited
Molecular Function (MF) binding 0.4563 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.01134 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0.0007452 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0111 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 defense1.775e-06InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Coding sequence diversityAlternative splicing6.448e-09Least InformativeDirect
DomainRepeat0.0002507Least 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 ]