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 (468) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 9,259 7,672 23
Proteins 9,231 7,661 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)binding0.002337.662e-09Least 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) multicellular organismal process 1.977e-05 Least Informative Direct
Biological Process (BP) developmental process 8.289e-06 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0001937 Least Informative Direct
Biological Process (BP) response to stimulus 7.622e-13 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000153 Least Informative Direct
Biological Process (BP) localization 0.7339 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.5336 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1305 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.9643 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.6893 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) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) reproduction 0.000237 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 1.705e-13 Moderately Informative Direct
Biological Process (BP) macromolecule localization 3.433e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0006701 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.2296 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.07954 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9847 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.3516 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.245 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2275 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.377 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.5735 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3556 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.846 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.01441 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.07457 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.6997 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.2353 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.04072 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.006947 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.214 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 0.4825 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.6201 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9405 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2428 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.03198 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.1521 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.6211 Moderately Informative Inherited
Biological Process (BP) organ development 0.1708 Moderately Informative Inherited
Biological Process (BP) cytoskeleton organization 6.155e-05 Informative Direct
Biological Process (BP) response to hormone stimulus 0 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 2.277e-06 Informative Direct
Biological Process (BP) phosphorylation 4.839e-05 Informative Direct
Biological Process (BP) response to nutrient levels 0.0009023 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0005375 Informative Direct
Biological Process (BP) apoptotic process 0.7999 Informative Inherited
Biological Process (BP) tube development 0.1509 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.2857 Informative Inherited
Biological Process (BP) generation of neurons 0.9371 Informative Inherited
Biological Process (BP) organelle localization 0.01055 Informative Inherited
Biological Process (BP) cell cycle process 0.4708 Informative Inherited
Biological Process (BP) microtubule-based process 0.005025 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.6129 Informative Inherited
Biological Process (BP) reproductive system development 0.03745 Informative Inherited
Biological Process (BP) sensory organ development 0.02515 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.1776 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.005647 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 0.05311 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2011 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.1646 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1926 Informative Inherited
Biological Process (BP) epithelium development 0.01856 Informative Inherited
Biological Process (BP) regulation of cell development 0.4506 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.005463 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.005535 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.03794 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.6486 Informative Inherited
Biological Process (BP) response to lipid 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.185 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.008026 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.1539 Informative Inherited
Biological Process (BP) sexual reproduction 0.8184 Informative Inherited
Biological Process (BP) single organism reproductive process 0.6026 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.3962 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.1844 Informative Inherited
Biological Process (BP) DNA metabolic process 0.515 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.01544 Informative Inherited
Biological Process (BP) organ morphogenesis 0.04397 Informative Inherited
Biological Process (BP) DNA catabolic process 6.374e-05 Highly Informative Direct
Biological Process (BP) protein phosphorylation 1.693e-06 Highly Informative Direct
Biological Process (BP) autophagy 4.904e-08 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) cellular response to starvation 2.034e-05 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.0002089 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 6.815e-06 Highly Informative Direct
Biological Process (BP) cell junction organization 5.693e-10 Highly Informative Direct
Biological Process (BP) photoreceptor cell differentiation 8.469e-05 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0002939 Highly Informative Direct
Biological Process (BP) eye morphogenesis 2.451e-06 Highly Informative Direct
Biological Process (BP) positive regulation of neurogenesis 1.541e-05 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 2.698e-06 Highly Informative Direct
Biological Process (BP) stem cell proliferation 6.368e-06 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 7.559e-11 Highly Informative Direct
Biological Process (BP) respiratory system development 0.1542 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.2189 Highly Informative Inherited
Biological Process (BP) cell division 0.004305 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.2038 Highly Informative Inherited
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.002296 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.03941 Highly Informative Inherited
Biological Process (BP) response to alcohol 0.2631 Highly Informative Inherited
Biological Process (BP) learning or memory 0.004405 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.00859 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.002037 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.009004 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.001137 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.006543 Highly Informative Inherited
Molecular Function (MF) binding 7.662e-09 Least Informative Direct
Molecular Function (MF) transferase activity 0.0001234 Least Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 3.44e-10 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.006658 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.06402 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) kinase activity 5.991e-12 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 3.753e-13 Informative Direct
Molecular Function (MF) enzyme binding 0.0004355 Informative Direct
Molecular Function (MF) enzyme activator activity 0.1819 Informative Inherited
Molecular Function (MF) lipid binding 0.04795 Informative Inherited
Molecular Function (MF) sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0 Highly Informative Direct
Molecular Function (MF) Ras GTPase binding 0.000101 Highly Informative Direct
Molecular Function (MF) kinase binding 0.0002163 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.0002727 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.01443 Least Informative Inherited
Cellular Component (CC) membrane 0.2426 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1584 Least Informative Inherited
Cellular Component (CC) cytosol 0.0005416 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.02923 Moderately Informative Inherited
Cellular Component (CC) cell-cell junction 1.948e-11 Informative Direct
Cellular Component (CC) cell cortex 1.076e-11 Informative Direct
Cellular Component (CC) apical plasma membrane 1.004e-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 homeostasis0.791Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.06135Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.06135Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal circulating leptin level0.0005435InformativeDirect
Mammalian Phenotype (MP)abnormal fatty acid level0.0005088Highly 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 Phenotype (FP)

(show details) Document: FP 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 kinases5.201e-14Moderately InformativeDirect
Enzyme Commission (EC)Protein kinase C4.814e-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 processDifferentiation0.0005126Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome1.231e-11Moderately InformativeDirect
Cellular componentCell junction2.717e-08Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.867e-05Moderately InformativeDirect
Cellular componentLysosome5.011e-08InformativeDirect
Cellular componentLipid droplet2.277e-11Highly InformativeDirect
Cellular componentTight junction4.914e-08Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000261Least InformativeDirect
DiseaseProto-oncogene0.0001303Moderately InformativeDirect
DomainZinc-finger2.074e-06Moderately InformativeDirect
DomainSH3 domain4.251e-13InformativeDirect
DomainTPR repeat3.266e-07Highly InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator9.177e-05Moderately InformativeDirect
Post-translational modificationKinase0.0008328Moderately InformativeDirect
Post-translational modificationSerine/threonine-protein kinase2.158e-14InformativeDirect
Post-translational modificationPhosphoprotein1.644e-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 Phenotype (FP) · 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 Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]