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 (418) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 7,229 5,670 23
Proteins 7,202 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)binding0.0024482.298e-08Least InformativeInherited

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 1.183e-12 Least Informative Direct
Biological Process (BP) developmental process 8.744e-06 Least Informative Direct
Biological Process (BP) multicellular organismal process 2.022e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0002713 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0005047 Least Informative Direct
Biological Process (BP) localization 0.8424 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.4075 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2636 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.9853 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.7061 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 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 1.453e-13 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.0001017 Moderately Informative Direct
Biological Process (BP) reproduction 0.0002673 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.06715 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9247 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.3466 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.3329 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2055 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.02538 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.02642 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.361 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.4573 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.5696 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3726 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9314 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.7332 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.01618 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.05396 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.6851 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.2231 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.1086 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.09073 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.006475 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.2783 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 0.486 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5802 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2677 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.03764 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.1695 Moderately Informative Inherited
Biological Process (BP) macromolecule catabolic process 0.4011 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.6485 Moderately Informative Inherited
Biological Process (BP) organ development 0.1455 Moderately Informative Inherited
Biological Process (BP) response to hormone stimulus 0 Informative Direct
Biological Process (BP) cell death 5.744e-09 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 2.206e-06 Informative Direct
Biological Process (BP) cytoskeleton organization 5.303e-05 Informative Direct
Biological Process (BP) phosphorylation 6.05e-05 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0005023 Informative Direct
Biological Process (BP) response to nutrient levels 0.0009643 Informative Direct
Biological Process (BP) tissue morphogenesis 0.2771 Informative Inherited
Biological Process (BP) generation of neurons 0.9777 Informative Inherited
Biological Process (BP) organelle localization 0.006559 Informative Inherited
Biological Process (BP) cell cycle process 0.5012 Informative Inherited
Biological Process (BP) microtubule-based process 0.003679 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.6195 Informative Inherited
Biological Process (BP) single organism reproductive process 0.5821 Informative Inherited
Biological Process (BP) sexual reproduction 0.8066 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) reproductive structure development 0.01349 Informative Inherited
Biological Process (BP) sensory organ development 0.02434 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.006044 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.04652 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.1736 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2151 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1897 Informative Inherited
Biological Process (BP) epithelium development 0.018 Informative Inherited
Biological Process (BP) regulation of cell development 0.5472 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.003659 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.004435 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.01207 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.632 Informative Inherited
Biological Process (BP) response to lipid 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.1726 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.08058 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.2012 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.4231 Informative Inherited
Biological Process (BP) DNA metabolic process 0.5417 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.01862 Informative Inherited
Biological Process (BP) organ morphogenesis 0.03858 Informative Inherited
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 2.245e-10 Highly Informative Direct
Biological Process (BP) cell junction organization 5.543e-10 Highly Informative Direct
Biological Process (BP) autophagy 2.722e-08 Highly Informative Direct
Biological Process (BP) protein phosphorylation 2.075e-06 Highly Informative Direct
Biological Process (BP) eye morphogenesis 2.855e-06 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 6.655e-06 Highly Informative Direct
Biological Process (BP) cellular response to starvation 2.21e-05 Highly Informative Direct
Biological Process (BP) photoreceptor cell differentiation 8.887e-05 Highly Informative Direct
Biological Process (BP) DNA catabolic process 9.901e-05 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 0.0001302 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.0001525 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0001789 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 0.0007423 Highly Informative Direct
Biological Process (BP) superoxide metabolic process 0.000905 Highly Informative Direct
Biological Process (BP) cell proliferation 0.1241 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.06206 Highly Informative Inherited
Biological Process (BP) cell division 0.004661 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.1917 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.08379 Highly Informative Inherited
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.001632 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.001847 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.03974 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.01251 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.001275 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.009371 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.006248 Highly Informative Inherited
Molecular Function (MF) binding 2.298e-08 Least Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 4.531e-10 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.006223 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.06371 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 5.212e-13 Informative Direct
Molecular Function (MF) kinase activity 8.123e-12 Informative Direct
Molecular Function (MF) enzyme binding 0.0002169 Informative Direct
Molecular Function (MF) enzyme activator activity 0.183 Informative Inherited
Molecular Function (MF) lipid binding 0.04897 Informative Inherited
Molecular Function (MF) protein kinase activity 0 Highly Informative Direct
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) Ras GTPase binding 0.0001012 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.01409 Least Informative Inherited
Cellular Component (CC) membrane 0.1809 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1241 Least Informative Inherited
Cellular Component (CC) cytosol 0.0005958 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 0.001216 Moderately Informative Inherited
Cellular Component (CC) cell cortex 1.576e-11 Informative Direct
Cellular Component (CC) cell-cell junction 2.566e-11 Informative Direct
Cellular Component (CC) apical plasma membrane 1.476e-13 Highly Informative Direct

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 nervous system morphology0Least InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.8149Least InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.05952Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.0606Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal circulating leptin level0.000478InformativeDirect
Mammalian Phenotype (MP)abnormal fatty acid level0.000527Highly InformativeDirect

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)trunk0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)cardiovascular system0Moderately InformativeDirect

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 tissue0.1354Least InformativeInherited
Plant ANatomical entity (PAN)root system0.3886Least InformativeInherited
Plant ANatomical entity (PAN)root meristem0.01088Highly 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 kinases5.315e-14Moderately InformativeDirect
Enzyme Commission (EC)Protein kinase C4.808e-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 processDifferentiation0.0004904Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome1.223e-11Moderately InformativeDirect
Cellular componentCell junction2.424e-08Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.609e-05Moderately InformativeDirect
Cellular componentLysosome5.256e-08InformativeDirect
Cellular componentLipid droplet1.754e-11Highly InformativeDirect
Cellular componentTight junction5.661e-08Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0001616Least InformativeDirect
DiseaseProto-oncogene0.00014Moderately InformativeDirect
DomainZinc-finger2.016e-06Moderately InformativeDirect
DomainSH3 domain4.548e-13InformativeDirect
DomainTPR repeat3.061e-07Highly InformativeDirect
Molecular functionDNA-binding0Least InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator9.132e-05Moderately InformativeDirect
Post-translational modificationKinase0.0008233Moderately InformativeDirect
Post-translational modificationSerine/threonine-protein kinase2.2e-14InformativeDirect
Post-translational modificationPhosphoprotein1.519e-09Least 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 ]