SUPERFAMILY 1.75 HMM library and genome assignments server


CAD & PB1 domains superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   beta-Grasp (ubiquitin-like) [ 54235] (14)
Superfamily:   CAD & PB1 domains [ 54277] (2)
Families:   CAD domain [ 54278] (3)
  PB1 domain [ 64225] (10)


Superfamily statistics
Genomes (416) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 7,197 5,670 23
Proteins 7,170 5,662 23


Functional annotation
General category Processes_IC
Detailed category Cell cycle, Apoptosis

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Molecular Function (MF)binding0.0035253.504e-06Least InformativeInherited
Molecular Function (MF)protein binding0.00046775.012e-09Moderately InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) response to stimulus 3.1e-13 Least Informative Direct
Biological Process (BP) developmental process 0.0001525 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0001767 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0006157 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.07027 Least Informative Inherited
Biological Process (BP) localization 0.8995 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.001181 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.5457 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.6232 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) response to endogenous stimulus 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 2.615e-14 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0001775 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.08969 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.2967 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9383 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.5635 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.2329 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2481 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.9077 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.1502 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.08441 Moderately Informative Inherited
Biological Process (BP) regulation of nitrogen compound metabolic process 0.2516 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.2899 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.2822 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9373 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.47 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.2925 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.446 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.4184 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.09923 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.05117 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.09503 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.1497 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.1868 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.3719 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.5118 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5743 Moderately Informative Inherited
Biological Process (BP) reproduction 0.001002 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1252 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.04307 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.005123 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 0.7284 Moderately Informative Inherited
Biological Process (BP) organ development 0.1598 Moderately Informative Inherited
Biological Process (BP) response to hormone stimulus 0 Informative Direct
Biological Process (BP) cellular component disassembly 5.436e-07 Informative Direct
Biological Process (BP) protein phosphorylation 2.762e-06 Informative Direct
Biological Process (BP) negative regulation of cell death 4.53e-06 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 4.744e-06 Informative Direct
Biological Process (BP) cytoskeleton organization 1.361e-05 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0002007 Informative Direct
Biological Process (BP) developmental process involved in reproduction 0.0007638 Informative Direct
Biological Process (BP) apoptotic process 0.9977 Informative Inherited
Biological Process (BP) regulation of protein localization 0.02044 Informative Inherited
Biological Process (BP) cell proliferation 0.1232 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.2777 Informative Inherited
Biological Process (BP) tube development 0.1013 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) cell cycle process 0.6534 Informative Inherited
Biological Process (BP) microtubule-based process 0.002409 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.5084 Informative Inherited
Biological Process (BP) single organism reproductive process 0.4793 Informative Inherited
Biological Process (BP) sexual reproduction 0.6481 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.9879 Informative Inherited
Biological Process (BP) reproductive system development 0.03656 Informative Inherited
Biological Process (BP) sensory organ development 0.01958 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.005425 Informative Inherited
Biological Process (BP) positive regulation of phosphorus metabolic process 0.01129 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.04925 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2286 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.9662 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1942 Informative Inherited
Biological Process (BP) epithelium development 0.02013 Informative Inherited
Biological Process (BP) regulation of cell development 0.05095 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.00591 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.003858 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.01008 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.6028 Informative Inherited
Biological Process (BP) response to lipid 1 Informative Inherited
Biological Process (BP) response to external stimulus 0.7871 Informative Inherited
Biological Process (BP) single-organism behavior 0.1744 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.06176 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.002416 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.002574 Informative Inherited
Biological Process (BP) DNA metabolic process 0.03833 Informative Inherited
Biological Process (BP) organ morphogenesis 0.03288 Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) cellular component disassembly involved in execution phase of apoptosis 1.582e-13 Highly Informative Direct
Biological Process (BP) DNA catabolic process 4.157e-12 Highly Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 1.13e-08 Highly Informative Direct
Biological Process (BP) autophagy 4.502e-07 Highly Informative Direct
Biological Process (BP) eye morphogenesis 2.399e-06 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 3.375e-06 Highly Informative Direct
Biological Process (BP) stem cell proliferation 8.451e-06 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 1.239e-05 Highly Informative Direct
Biological Process (BP) cellular response to starvation 3.155e-05 Highly Informative Direct
Biological Process (BP) photoreceptor cell differentiation 5.312e-05 Highly Informative Direct
Biological Process (BP) activation of protein kinase activity 7.631e-05 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 9.55e-05 Highly Informative Direct
Biological Process (BP) protein complex localization 0.0001284 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0001666 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.0001688 Highly Informative Direct
Biological Process (BP) regulation of cell projection organization 0.000279 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 0.0002989 Highly Informative Direct
Biological Process (BP) organelle localization 0.0006906 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 0.001053 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.05732 Highly Informative Inherited
Biological Process (BP) cell division 0.0221 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.2109 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.07196 Highly Informative Inherited
Biological Process (BP) germ cell development 0.07572 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.002421 Highly Informative Inherited
Biological Process (BP) mitotic cell cycle 0.02152 Highly Informative Inherited
Biological Process (BP) learning or memory 0.0038 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.02275 Highly Informative Inherited
Molecular Function (MF) binding 3.504e-06 Least Informative Direct
Molecular Function (MF) transferase activity 1.086e-05 Least Informative Direct
Molecular Function (MF) protein binding 5.012e-09 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1.25e-06 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 2.932e-13 Informative Direct
Molecular Function (MF) kinase activity 4.825e-12 Informative Direct
Molecular Function (MF) enzyme binding 0.0001249 Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) protein kinase activity 1.562e-15 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.0244 Least Informative Inherited
Cellular Component (CC) membrane 0.4879 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.2836 Least Informative Inherited
Cellular Component (CC) cytosol 0.000399 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.01849 Moderately Informative Inherited
Cellular Component (CC) cell cortex 3.82e-11 Informative Direct
Cellular Component (CC) cell junction 2.485e-09 Informative Direct
Cellular Component (CC) vacuole 0.003968 Informative Inherited
Cellular Component (CC) apical plasma membrane 1.092e-13 Highly Informative Direct
Cellular Component (CC) cell-cell junction 0.004939 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)Protein-serine/threonine kinases5.968e-14Moderately InformativeDirect
Enzyme Commission (EC)Protein kinase C4.713e-16Highly InformativeDirect
Enzyme Commission (EC)Mitogen-activated protein kinase kinase kinase8.198e-07Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the central nervous system0Least InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.8132Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid level0.03613Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal fatty acid level0.0004123InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.001063Least InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.0003339Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0003483Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0.000485Moderately InformativeDirect
Worm Phenotype (WP)receptor mediated endocytosis defective8.736e-05InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)cell0Least InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)trunk0Moderately InformativeDirect
Zebrafish Anatomy (ZA)cardiovascular system0InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)portion of meristem tissue0.0006599Least InformativeDirect
Plant ANatomical entity (PAN)root meristem0.01007Highly InformativeInherited

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases6.148e-14Moderately InformativeDirect
Enzyme Commission (EC)Protein kinase C4.77e-16Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Biological processTranscription regulation0Moderately InformativeDirect
Biological processDifferentiation0.0004144Moderately InformativeDirect
Biological processAuxin signaling pathway0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome3.681e-10Moderately InformativeDirect
Cellular componentCell junction1.211e-08Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.059e-05Moderately InformativeDirect
Cellular componentLysosome4.592e-08InformativeDirect
Cellular componentLipid droplet5.929e-12Highly InformativeDirect
Cellular componentTight junction6.945e-08Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0007971Least InformativeDirect
DiseaseProto-oncogene0.0001953Moderately InformativeDirect
DomainSH3 domain4.692e-13InformativeDirect
DomainTPR repeat2.951e-07Highly InformativeDirect
Molecular functionMetal-binding1Least InformativeInherited
Molecular functionDNA-binding0Moderately InformativeDirect
Molecular functionZinc-finger1.678e-06Moderately InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator8.381e-05Moderately InformativeDirect
Post-translational modificationKinase0.0007798Moderately InformativeDirect
Post-translational modificationSerine/threonine-protein kinase2.237e-14InformativeDirect
Post-translational modificationPhosphoprotein3.603e-11Least InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · 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 15 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 CAD & PB1 domains 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 15 hidden Markov models representing the CAD & PB1 domains 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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]