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 4.792e-14 Least Informative Direct
Biological Process (BP) multicellular organismal process 1.032e-10 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1.966e-05 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.2913 Least Informative Inherited
Biological Process (BP) localization 0.9164 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.4475 Least Informative Inherited
Biological Process (BP) response to stimulus 0.02318 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.7156 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.1231 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1043 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.02431 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.3042 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.1045 Least Informative Inherited
Biological Process (BP) regulation of gene expression 0 Moderately Informative Direct
Biological Process (BP) reproduction 1.784e-14 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1.055e-13 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 1.919e-13 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1.667e-08 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 4.939e-08 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 5.333e-08 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 5.436e-08 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 1.246e-07 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1.294e-07 Moderately Informative Direct
Biological Process (BP) organ development 3.897e-07 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 6.824e-07 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 9.722e-07 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 3.893e-06 Moderately Informative Direct
Biological Process (BP) gene expression 2.277e-05 Moderately Informative Direct
Biological Process (BP) tissue development 4.123e-05 Moderately Informative Direct
Biological Process (BP) response to abiotic stimulus 9.938e-05 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0001711 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 0.2972 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9574 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.9142 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.1358 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.00116 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.3453 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.6032 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.9487 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.1911 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.1093 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.1093 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.2293 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.05276 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.469 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.009302 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.09373 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.03185 Moderately Informative Inherited
Biological Process (BP) positive regulation of gene expression 3.77e-15 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 3.77e-15 Informative Direct
Biological Process (BP) reproductive system development 5.763e-14 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 7.054e-14 Informative Direct
Biological Process (BP) transcription, DNA-dependent 8.969e-14 Informative Direct
Biological Process (BP) developmental process involved in reproduction 2.936e-13 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 5.36e-12 Informative Direct
Biological Process (BP) muscle structure development 3.331e-10 Informative Direct
Biological Process (BP) response to light stimulus 7.661e-09 Informative Direct
Biological Process (BP) muscle tissue development 1.65e-07 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 3.693e-06 Informative Direct
Biological Process (BP) cellular process involved in reproduction 2.046e-05 Informative Direct
Biological Process (BP) organelle assembly 4.545e-05 Informative Direct
Biological Process (BP) response to inorganic substance 8.166e-05 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0001907 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.0001971 Informative Direct
Biological Process (BP) actin filament-based process 0.0002412 Informative Direct
Biological Process (BP) response to lipid 0.0004087 Informative Direct
Biological Process (BP) organ morphogenesis 0.0004586 Informative Direct
Biological Process (BP) tube development 0.1114 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.09561 Informative Inherited
Biological Process (BP) regulation of defense response 0.1312 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.02576 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.001153 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.1438 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.008546 Informative Inherited
Biological Process (BP) response to other organism 0.8114 Informative Inherited
Biological Process (BP) positive regulation of cell proliferation 0.6752 Informative Inherited
Biological Process (BP) regulation of system process 0.03602 Informative Inherited
Biological Process (BP) regulation of growth 0.252 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.07977 Informative Inherited
Biological Process (BP) organelle localization 0.08461 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.6438 Informative Inherited
Biological Process (BP) synaptic transmission 0.109 Informative Inherited
Biological Process (BP) multi-multicellular organism process 0.005852 Informative Inherited
Biological Process (BP) cell projection organization 0.4838 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.2995 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.008342 Informative Inherited
Biological Process (BP) mitochondrion organization 0.01383 Informative Inherited
Biological Process (BP) leukocyte activation 0.006827 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.001289 Informative Inherited
Biological Process (BP) generation of neurons 0.04179 Informative Inherited
Biological Process (BP) regulation of cell development 0.9276 Informative Inherited
Biological Process (BP) regulation of nervous system development 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.1531 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.534 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.1411 Informative Inherited
Biological Process (BP) embryonic organ development 0.01867 Informative Inherited
Biological Process (BP) cytoskeleton organization 0.01288 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.3913 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 0.03196 Informative Inherited
Biological Process (BP) growth 0.001893 Informative Inherited
Biological Process (BP) single-organism behavior 0.002181 Informative Inherited
Biological Process (BP) response to nutrient levels 0.01528 Informative Inherited
Biological Process (BP) cardiovascular system development 0.001068 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.2711 Informative Inherited
Biological Process (BP) regulation of immune response 0.01501 Informative Inherited
Biological Process (BP) immune response 0.1243 Informative Inherited
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) external encapsulating structure organization 0 Highly Informative Direct
Biological Process (BP) response to cold 1.944e-15 Highly Informative Direct
Biological Process (BP) post-embryonic development 1.616e-14 Highly Informative Direct
Biological Process (BP) response to calcium ion 3.468e-14 Highly Informative Direct
Biological Process (BP) cardiocyte differentiation 4.792e-14 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 4.864e-12 Highly Informative Direct
Biological Process (BP) MAPK cascade 2.031e-09 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 4.619e-08 Highly Informative Direct
Biological Process (BP) response to UV 8.516e-08 Highly Informative Direct
Biological Process (BP) ossification 1.406e-07 Highly Informative Direct
Biological Process (BP) cardiac muscle tissue development 6.315e-07 Highly Informative Direct
Biological Process (BP) cellular response to metal ion 2.073e-06 Highly Informative Direct
Biological Process (BP) leukocyte homeostasis 3.472e-06 Highly Informative Direct
Biological Process (BP) regulation of adaptive immune response based on somatic recombination of immune receptors built from 3.923e-06 Highly Informative Direct
Biological Process (BP) regulation of binding 5.181e-06 Highly Informative Direct
Biological Process (BP) membrane fusion 6.356e-06 Highly Informative Direct
Biological Process (BP) leukocyte proliferation 1.158e-05 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 2.21e-05 Highly Informative Direct
Biological Process (BP) cellular component assembly involved in morphogenesis 2.534e-05 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 2.616e-05 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 2.769e-05 Highly Informative Direct
Biological Process (BP) actomyosin structure organization 3.369e-05 Highly Informative Direct
Biological Process (BP) connective tissue development 3.606e-05 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 4.868e-05 Highly Informative Direct
Biological Process (BP) cellular response to biotic stimulus 7.268e-05 Highly Informative Direct
Biological Process (BP) humoral immune response 0.0001403 Highly Informative Direct
Biological Process (BP) response to toxic substance 0.000148 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 0.0001519 Highly Informative Direct
Biological Process (BP) regulation of behavior 0.0002185 Highly Informative Direct
Biological Process (BP) carbohydrate homeostasis 0.0002553 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0002624 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0002919 Highly Informative Direct
Biological Process (BP) cell growth 0.0003172 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 0.0003674 Highly Informative Direct
Biological Process (BP) muscle organ development 0.0005049 Highly Informative Direct
Biological Process (BP) learning or memory 0.0005055 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0.0006669 Highly Informative Direct
Biological Process (BP) immune response-regulating cell surface receptor signaling pathway 0.0007627 Highly Informative Direct
Biological Process (BP) skeletal system development 0.0009748 Highly Informative Direct
Biological Process (BP) renal system development 0.3788 Highly Informative Inherited
Biological Process (BP) positive regulation of programmed cell death 0.001819 Highly Informative Inherited
Biological Process (BP) response to carbohydrate stimulus 0.004231 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.2748 Highly Informative Inherited
Biological Process (BP) positive regulation of cell activation 0.1051 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 1 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 1 Highly Informative Inherited
Biological Process (BP) regulation of myeloid cell differentiation 0.01783 Highly Informative Inherited
Biological Process (BP) negative regulation of apoptotic process 0.03074 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.06069 Highly Informative Inherited
Biological Process (BP) B cell activation 0.003856 Highly Informative Inherited
Biological Process (BP) response to drug 0.003311 Highly Informative Inherited
Biological Process (BP) mesenchyme development 0.04293 Highly Informative Inherited
Biological Process (BP) stem cell development 0.1461 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.2164 Highly Informative Inherited
Biological Process (BP) developmental growth 0.0235 Highly Informative Inherited
Biological Process (BP) heart morphogenesis 0.003519 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.0051 Highly Informative Inherited
Molecular Function (MF) binding 5.218e-07 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 5.45e-09 Informative Direct
Molecular Function (MF) chromatin binding 0.0001342 Informative Direct
Molecular Function (MF) enzyme binding 0.02594 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) transcription regulatory region DNA binding 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 1.867e-06 Highly Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.03027 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.1984 Moderately Informative Inherited
Cellular Component (CC) nuclear part 1 Moderately Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1549 Informative Inherited
Cellular Component (CC) chromosome 0.1366 Informative Inherited
Cellular Component (CC) nuclear body 0.001491 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.005262 Highly Informative Inherited
Cellular Component (CC) chromatin 0.005525 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 phenotype0.08333Least 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 phenotype0.008268Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal brain morphology0.01403Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0184Moderately 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 contractility7.513e-05InformativeDirect
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.0002095InformativeDirect
Mammalian Phenotype (MP)abnormal neuron physiology0.0008514InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac muscle contractility0.009944InformativeInherited
Mammalian Phenotype (MP)abnormal heart layer morphology0.08217InformativeInherited
Mammalian Phenotype (MP)abnormal long term potentiation2.555e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cardiac muscle tissue morphology9.678e-05Highly InformativeDirect
Mammalian Phenotype (MP)neonatal lethality0.00316Highly InformativeInherited

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 processApoptosis1.195e-10Moderately InformativeDirect
Biological processNeurogenesis2.477e-14InformativeDirect
Cellular componentNucleus0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationPhosphoprotein0.0002531Least InformativeDirect
Post-translational modificationAcetylation0.0002873Least InformativeDirect
Post-translational modificationIsopeptide bond4.466e-12Moderately InformativeDirect
Post-translational modificationUbl conjugation3.487e-08Moderately 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 ]