SUPERFAMILY 1.75 HMM library and genome assignments server


Bromodomain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Bromodomain-like [ 47363] (15)
Superfamily:   Bromodomain [ 47370]
Families:   Bromodomain [ 47371] (4)


Superfamily statistics
Genomes (484) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 12,908 14,142 8
Proteins 10,104 10,963 7


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) regulation of metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) multicellular organismal process 4.822e-10 Least Informative Direct
Biological Process (BP) developmental process 9.431e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 2.5e-07 Least Informative Direct
Biological Process (BP) protein metabolic process 7.712e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 6.237e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 9.995e-05 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 0.0001274 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0006818 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.001001 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 1.648e-09 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 7.939e-08 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 5.783e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0009365 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.2696 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.04356 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.02746 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.09747 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.003594 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.002771 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.03671 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.8256 Moderately Informative Inherited
Biological Process (BP) immune system process 0.4998 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.3518 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.03234 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.03851 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.04331 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.1204 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.594 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.4275 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.3985 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.7175 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.001744 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.06688 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.8857 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) tissue development 0.764 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.7091 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 3.992e-10 Informative Direct
Biological Process (BP) DNA metabolic process 7.054e-09 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 7.231e-07 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1.15e-06 Informative Direct
Biological Process (BP) positive regulation of gene expression 1.286e-06 Informative Direct
Biological Process (BP) cardiovascular system development 4.447e-06 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 4.58e-06 Informative Direct
Biological Process (BP) muscle structure development 9.573e-06 Informative Direct
Biological Process (BP) growth 1.303e-05 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 1.336e-05 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 1.908e-05 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 3.707e-05 Informative Direct
Biological Process (BP) organophosphate catabolic process 4.053e-05 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 6.59e-05 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 6.906e-05 Informative Direct
Biological Process (BP) regulation of mitotic cell cycle 0.0001169 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.0001343 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.0001534 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0003833 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.2956 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.05982 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.286 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.001455 Informative Inherited
Biological Process (BP) tube development 0.2063 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.5216 Informative Inherited
Biological Process (BP) cell cycle process 0.02841 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.08957 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.03129 Informative Inherited
Biological Process (BP) cellular component disassembly 0.005897 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.3044 Informative Inherited
Biological Process (BP) central nervous system development 0.8633 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.07898 Informative Inherited
Biological Process (BP) cell projection organization 0.2813 Informative Inherited
Biological Process (BP) generation of neurons 0.8591 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.02275 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1453 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.2524 Informative Inherited
Biological Process (BP) regulation of cell proliferation 0.05696 Informative Inherited
Biological Process (BP) epithelium development 0.4501 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.04997 Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) chromatin assembly 0 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0 Highly Informative Direct
Biological Process (BP) placenta development 2.434e-14 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 3.505e-13 Highly Informative Direct
Biological Process (BP) regulation of binding 5.449e-10 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 5.413e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 1.061e-07 Highly Informative Direct
Biological Process (BP) epithelial tube formation 1.616e-06 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 3.865e-06 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 6.964e-06 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 8.377e-06 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 2.4e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 6.48e-05 Highly Informative Direct
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.0001839 Highly Informative Direct
Biological Process (BP) chromosome segregation 0.0002428 Highly Informative Direct
Biological Process (BP) protein deacylation 0.0004859 Highly Informative Direct
Biological Process (BP) pattern specification process 0.000721 Highly Informative Direct
Biological Process (BP) regulation of cellular ketone metabolic process 0.1203 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.01478 Highly Informative Inherited
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.3739 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.06905 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 0.3374 Highly Informative Inherited
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.01903 Highly Informative Inherited
Biological Process (BP) DNA modification 0.01336 Highly Informative Inherited
Biological Process (BP) protein methylation 0.3666 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.4135 Highly Informative Inherited
Biological Process (BP) meiosis 0.006187 Highly Informative Inherited
Biological Process (BP) morphogenesis of embryonic epithelium 0.001895 Highly Informative Inherited
Biological Process (BP) developmental growth 0.00798 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 3.868e-14 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0 Informative Direct
Molecular Function (MF) DNA binding 6.815e-08 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.00097 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.1662 Informative Inherited
Molecular Function (MF) kinase activity 0.283 Informative Inherited
Molecular Function (MF) receptor binding 0.6714 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) protein binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 1.558e-15 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 1.728e-07 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.02728 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 4.129e-11 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 8.658e-14 Least Informative Direct
Cellular Component (CC) protein complex 5.547e-09 Least Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 4.395e-11 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.2536 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.6208 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1508 Informative Inherited
Cellular Component (CC) SWI/SNF superfamily-type complex 0 Highly Informative Direct
Cellular Component (CC) kinetochore 2.436e-10 Highly Informative Direct
Cellular Component (CC) transcription elongation factor complex 5.615e-07 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 1.672e-06 Highly Informative Direct
Cellular Component (CC) spindle 0.6899 Highly Informative Inherited
Cellular Component (CC) chromatin 0.1877 Highly Informative Inherited
Cellular Component (CC) transcription factor complex 0.2363 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0.7336Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0Moderately InformativeDirect
Enzyme Commission (EC)Methyltransferases0.01673Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase6.826e-11InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)viral infectious disease0.5165InformativeInherited
Disease Ontology (DO)progressive multifocal leukoencephalopathy0.000576Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.1365Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of head and neck0.155Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5899Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.01685Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.04917Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digit0.1807Moderately InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.2377Moderately InformativeInherited
Phenotypic Abnormality (PA)Short digit0.0008736InformativeDirect
Phenotypic Abnormality (PA)Abnormality of phalanx of finger0.003764InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelid0.01783InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hair0.02219InformativeInherited
Phenotypic Abnormality (PA)Abnormality of toe0.09976InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental delay0.2386InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelashes1.448e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Short phalanx of finger2.195e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Delayed speech and language development0.0006018Highly InformativeDirect
Phenotypic Abnormality (PA)Hypertrichosis0.000979Highly InformativeDirect
Phenotypic Abnormality (PA)Clubbing0.001426Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the phalanges of the toes0.008225Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.6089Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.01322Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6421Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cranium morphology0.07727InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.1864InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube closure0.0001624Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.007523Least InformativeInherited
Worm Phenotype (WP)growth variant0.733Least InformativeInherited
Worm Phenotype (WP)organ system development variant1.098e-06Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.0004989Moderately InformativeDirect
Worm Phenotype (WP)VPC competence variant1.002e-06InformativeDirect
Worm Phenotype (WP)organism stress response variant2.911e-06InformativeDirect
Worm Phenotype (WP)sensillum morphology variant6.808e-06InformativeDirect
Worm Phenotype (WP)sick0.0009244InformativeDirect
Worm Phenotype (WP)vulva development variant0.02239InformativeInherited
Worm Phenotype (WP)organism UV hypersensitive8.96e-10Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0.09336Least InformativeInherited
Yeast Phenotype (YP)chromosome/plasmid maintenance2.691e-05InformativeDirect
Yeast Phenotype (YP)chemical compound accumulation0.000913InformativeDirect
Yeast Phenotype (YP)lifespan0.2176InformativeInherited
Yeast Phenotype (YP)ionic stress resistance0.0005688Highly InformativeDirect
Yeast Phenotype (YP)chronological lifespan0.0007018Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation0.0001504InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.0001874Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.8259Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases4.81e-16Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.001392Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.007182Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.7313Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase5.57e-11InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases2.801e-07InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0001643InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.04087InformativeInherited
Enzyme Commission (EC)Non-specific protein-tyrosine kinase2.541e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation8.598e-10Moderately InformativeDirect
Biological processCell cycle4.651e-05Moderately InformativeDirect
Biological processHost-virus interaction0.0001331Moderately InformativeDirect
Biological processDifferentiation0.0001601Moderately InformativeDirect
Biological processBiological rhythms2.51e-10InformativeDirect
Biological processMeiosis1.263e-07InformativeDirect
Biological processSporulation8.407e-07InformativeDirect
Biological processNeurogenesis2.607e-06InformativeDirect
Biological processSpermatogenesis1.293e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome7.886e-07InformativeDirect
Coding sequence diversityAlternative splicing1.13e-05Least InformativeDirect
Coding sequence diversityChromosomal rearrangement7.323e-09InformativeDirect
DiseaseTumor suppressor2.422e-07Moderately InformativeDirect
DomainRepeat8.368e-05Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger1.434e-09Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionZinc1.158e-13Least InformativeDirect
Molecular functionDNA-binding7.958e-08Moderately InformativeDirect
Post-translational modificationTransferase0.6371Least InformativeInherited
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor5.69e-10Moderately InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationAcyltransferase1.111e-13InformativeDirect
Post-translational modificationHelicase1.991e-07InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation7.737e-06Moderately InformativeDirect
Post-translational modificationIsopeptide bond9.217e-06Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR001487 SSF47370 Protein matches
Abstract Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins [PubMed1350857]. Bromodomains can interact with acetylated lysine [PubMed9175470]. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate.

The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [PubMed7580139].


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) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 6 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 Bromodomain 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 6 hidden Markov models representing the Bromodomain 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) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]