SUPERFAMILY 1.75 HMM library and genome assignments server

SRF-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   SRF-like [ 55454]
Superfamily:   SRF-like [ 55455]
Families:   SRF-like [ 55456] (4)


Superfamily statistics
Genomes (457) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 7,098 9,626 7
Proteins 7,071 9,620 7


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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) developmental process 0.00000000000006471 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.00000000001977 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.00006231 Least Informative Direct
Biological Process (BP) positive regulation of biological process 0.0002089 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.6091 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.203 Least Informative Inherited
Biological Process (BP) localization 0.9743 Least Informative Inherited
Biological Process (BP) response to stimulus 0.03022 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1824 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.4443 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.2094 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.04755 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.8273 Least Informative Inherited
Biological Process (BP) reproductive process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.00000000001618 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.000000001037 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 0.000000001847 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.000000006887 Moderately Informative Direct
Biological Process (BP) organ development 0.0000002289 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0000002602 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.0000002717 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.0000004399 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.0000004613 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.000000466 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0000005345 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.000006269 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 0.00001468 Moderately Informative Direct
Biological Process (BP) tissue development 0.00004272 Moderately Informative Direct
Biological Process (BP) response to external stimulus 0.0000587 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 0.0001142 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0001221 Moderately Informative Direct
Biological Process (BP) gene expression 0.0001321 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.937 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.001517 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.7316 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.1283 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.09266 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.1418 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.01048 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.3659 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.1888 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.1196 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5149 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 0.4707 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.4734 Moderately Informative Inherited
Biological Process (BP) immune system process 0.2358 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) single organism reproductive process 0 Informative Direct
Biological Process (BP) positive regulation of RNA metabolic process 0 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.00000000000002753 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.00000000000005349 Informative Direct
Biological Process (BP) transcription, DNA-templated 0.0000000000001561 Informative Direct
Biological Process (BP) positive regulation of gene expression 0.0000000000004997 Informative Direct
Biological Process (BP) reproductive structure development 0.000000000000901 Informative Direct
Biological Process (BP) cell wall organization or biogenesis 0.000000000000958 Informative Direct
Biological Process (BP) muscle structure development 0.00000000002491 Informative Direct
Biological Process (BP) response to light stimulus 0.000000008913 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.000004491 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.00001649 Informative Direct
Biological Process (BP) organelle assembly 0.00006761 Informative Direct
Biological Process (BP) response to inorganic substance 0.0000913 Informative Direct
Biological Process (BP) actin filament-based process 0.0001815 Informative Direct
Biological Process (BP) organ morphogenesis 0.0002466 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0003234 Informative Direct
Biological Process (BP) response to lipid 0.0004439 Informative Direct
Biological Process (BP) single-organism behavior 0.0007321 Informative Direct
Biological Process (BP) cellular response to hormone stimulus 0.007443 Informative Inherited
Biological Process (BP) cellular chemical homeostasis 0.1396 Informative Inherited
Biological Process (BP) response to bacterium 0.04719 Informative Inherited
Biological Process (BP) synaptic transmission 0.1129 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.8068 Informative Inherited
Biological Process (BP) regulation of growth 0.1335 Informative Inherited
Biological Process (BP) neurological system process 0.1385 Informative Inherited
Biological Process (BP) regulation of cell activation 0.07183 Informative Inherited
Biological Process (BP) generation of neurons 0.04416 Informative Inherited
Biological Process (BP) cell projection organization 0.4355 Informative Inherited
Biological Process (BP) regulation of cell development 0.7383 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.243 Informative Inherited
Biological Process (BP) organelle localization 0.08694 Informative Inherited
Biological Process (BP) single-organism cellular localization 0.01701 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.001807 Informative Inherited
Biological Process (BP) regulation of nervous system development 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.2194 Informative Inherited
Biological Process (BP) leukocyte activation 0.00698 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.009011 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.5239 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.1405 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.02506 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.3826 Informative Inherited
Biological Process (BP) positive regulation of cell death 0.4441 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.6877 Informative Inherited
Biological Process (BP) cell proliferation 0.1215 Informative Inherited
Biological Process (BP) regulation of defense response 0.1137 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.5501 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.339 Informative Inherited
Biological Process (BP) cytoskeleton organization 0.01335 Informative Inherited
Biological Process (BP) growth 0.002322 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.0337 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.01324 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.00329 Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.006602 Informative Inherited
Biological Process (BP) regulation of system process 0.2152 Informative Inherited
Biological Process (BP) response to nutrient levels 0.02192 Informative Inherited
Biological Process (BP) immune response 0.1187 Informative Inherited
Biological Process (BP) cardiovascular system development 0.001147 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.07219 Informative Inherited
Biological Process (BP) tube development 0.1772 Informative Inherited
Biological Process (BP) embryonic organ development 0.01389 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.2042 Informative Inherited
Biological Process (BP) regulation of immune response 0.01682 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.6831 Informative Inherited
Biological Process (BP) phosphorylation 0.008861 Informative Inherited
Biological Process (BP) mitochondrion organization 0.01438 Informative Inherited
Biological Process (BP) external encapsulating structure organization 0 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0 Highly Informative Direct
Biological Process (BP) transcription from RNA polymerase II promoter 0 Highly Informative Direct
Biological Process (BP) regulation of reproductive process 0 Highly Informative Direct
Biological Process (BP) response to cold 0.000000000000003707 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.00000000000003411 Highly Informative Direct
Biological Process (BP) response to calcium ion 0.00000000000003735 Highly Informative Direct
Biological Process (BP) cardiocyte differentiation 0.00000000000003735 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-templated 0.00000000002734 Highly Informative Direct
Biological Process (BP) response to UV 0.0000001163 Highly Informative Direct
Biological Process (BP) ossification 0.0000002082 Highly Informative Direct
Biological Process (BP) MAPK cascade 0.0000007227 Highly Informative Direct
Biological Process (BP) cellular response to metal ion 0.000002231 Highly Informative Direct
Biological Process (BP) leukocyte homeostasis 0.00000403 Highly Informative Direct
Biological Process (BP) membrane fusion 0.00000714 Highly Informative Direct
Biological Process (BP) regulation of hematopoietic progenitor cell differentiation 0.0000075 Highly Informative Direct
Biological Process (BP) positive regulation of behavior 0.000007998 Highly Informative Direct
Biological Process (BP) connective tissue development 0.000008198 Highly Informative Direct
Biological Process (BP) regulation of binding 0.000008475 Highly Informative Direct
Biological Process (BP) leukocyte proliferation 0.00001169 Highly Informative Direct
Biological Process (BP) muscle organ development 0.00001543 Highly Informative Direct
Biological Process (BP) columnar/cuboidal epithelial cell differentiation 0.0000209 Highly Informative Direct
Biological Process (BP) cellular component assembly involved in morphogenesis 0.00002138 Highly Informative Direct
Biological Process (BP) actomyosin structure organization 0.00002904 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 0.00003296 Highly Informative Direct
Biological Process (BP) cardiac muscle tissue development 0.00004272 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.00005443 Highly Informative Direct
Biological Process (BP) regulation of adaptive immune response 0.00006603 Highly Informative Direct
Biological Process (BP) cellular response to biotic stimulus 0.00008538 Highly Informative Direct
Biological Process (BP) humoral immune response 0.0001385 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.0001724 Highly Informative Direct
Biological Process (BP) response to toxic substance 0.0001938 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0002694 Highly Informative Direct
Biological Process (BP) cell growth 0.00028 Highly Informative Direct
Biological Process (BP) skeletal system development 0.0003146 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.000339 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 0.0003948 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0003995 Highly Informative Direct
Biological Process (BP) meiotic cell cycle 0.0005478 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0.0006352 Highly Informative Direct
Biological Process (BP) immune response-regulating cell surface receptor signaling pathway 0.0007825 Highly Informative Direct
Biological Process (BP) kidney development 0.1528 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.1569 Highly Informative Inherited
Biological Process (BP) regulation of synaptic transmission 0.001104 Highly Informative Inherited
Biological Process (BP) positive regulation of cell activation 0.08121 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.9702 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 1 Highly Informative Inherited
Biological Process (BP) positive regulation of growth 0.002196 Highly Informative Inherited
Biological Process (BP) positive regulation of neurogenesis 0.00139 Highly Informative Inherited
Biological Process (BP) regulation of myeloid cell differentiation 0.01929 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.05243 Highly Informative Inherited
Biological Process (BP) B cell activation 0.003985 Highly Informative Inherited
Biological Process (BP) response to drug 0.002895 Highly Informative Inherited
Biological Process (BP) response to carbohydrate 0.00416 Highly Informative Inherited
Biological Process (BP) mesenchyme development 0.07825 Highly Informative Inherited
Biological Process (BP) stem cell development 0.1317 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.2719 Highly Informative Inherited
Biological Process (BP) developmental growth 0.01633 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.005553 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.0034 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.004875 Highly Informative Inherited
Molecular Function (MF) binding 0.000001721 Least Informative Direct
Molecular Function (MF) nucleic acid binding 0 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) DNA binding 0.0000000002396 Informative Direct
Molecular Function (MF) chromatin binding 0.0001503 Informative Direct
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) enzyme binding 0.03175 Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 0.000001988 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding 0.00002018 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.02541 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.3614 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1385 Informative Inherited
Cellular Component (CC) chromosome 0.1382 Informative Inherited
Cellular Component (CC) nuclear body 0.0005553 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.004217 Highly Informative Inherited
Cellular Component (CC) chromatin 0.00553 Highly Informative Inherited

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details) Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body phenotype0Least InformativeDirect
Mammalian Phenotype (MP)cellular phenotype0Least InformativeDirect
Mammalian Phenotype (MP)cardiovascular system phenotype0Least InformativeDirect
Mammalian Phenotype (MP)mortality/aging0Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.0851Least InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal cell death0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0Moderately InformativeDirect
Mammalian Phenotype (MP)preweaning lethality0Moderately InformativeDirect
Mammalian Phenotype (MP)muscle phenotype0.008495Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.01447Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.01867Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)premature death0InformativeDirect
Mammalian Phenotype (MP)increased apoptosis0InformativeDirect
Mammalian Phenotype (MP)lethality during fetal growth through weaning0InformativeDirect
Mammalian Phenotype (MP)impaired muscle contractility0.00007822InformativeDirect
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.0002229InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0008495InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac muscle contractility0.00991InformativeInherited
Mammalian Phenotype (MP)abnormal heart layer morphology0.08584InformativeInherited
Mammalian Phenotype (MP)abnormal long term potentiation0.00002609Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac muscle tissue morphology0.0000974Highly InformativeDirect
Mammalian Phenotype (MP)abnormal myocardium layer morphology0.0002659Highly InformativeDirect

Document: MP 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

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)embryonic structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0InformativeDirect
Xenopus ANatomical entity (XAN)heart0InformativeDirect
Xenopus ANatomical entity (XAN)skeletal muscle0InformativeDirect
Xenopus ANatomical entity (XAN)neural plate0InformativeDirect
Xenopus ANatomical entity (XAN)trunk somite0Highly InformativeDirect
Xenopus ANatomical entity (XAN)myotome0Highly InformativeDirect
Xenopus ANatomical entity (XAN)trunk musculature0Highly InformativeDirect
Xenopus DEvelopment stage (XDE)embryonic stage0Least InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0.05061Least InformativeInherited
Plant ANatomical entity (PAN)seed1Least InformativeInherited
Plant ANatomical entity (PAN)portion of meristem tissue1Least InformativeInherited
Plant ANatomical entity (PAN)root system1Least InformativeInherited
Plant ANatomical entity (PAN)shoot axis1Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure1Least InformativeInherited
Plant ANatomical entity (PAN)portion of ground tissue0.01658InformativeInherited
Plant ANatomical entity (PAN)root tip0.02058InformativeInherited
Plant ANatomical entity (PAN)embryo sac cell0Highly InformativeDirect
Plant ANatomical entity (PAN)reproductive shoot apex0.0001307Highly InformativeDirect
Plant ANatomical entity (PAN)plant ovule0.000548Highly InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processApoptosis0.0000000001205Moderately InformativeDirect
Biological processNeurogenesis0.00000000000002611InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.0002619Least InformativeDirect
Post-translational modificationAcetylation0.0002916Least InformativeDirect
Post-translational modificationIsopeptide bond0.000000000004941Moderately InformativeDirect
Post-translational modificationUbl conjugation0.00000003771Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR002100 SSF55455 Protein matches
Abstract Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [PubMed7637780], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins.

Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see


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) · Disease Ontology (DO) · Mouse Phenotype (MP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · 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 4 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 SRF-like 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 4 hidden Markov models representing the SRF-like 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) · Disease Ontology (DO) · Mouse Phenotype (MP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]