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 (457) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 8,636 7,672 23
Proteins 8,616 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)binding0.0021781.049e-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) multicellular organismal process 1.197e-05 Least Informative Direct
Biological Process (BP) developmental process 4.932e-06 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000613 Least Informative Direct
Biological Process (BP) response to stimulus 2.663e-13 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0001774 Least Informative Direct
Biological Process (BP) localization 0.7013 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.4463 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2546 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.9429 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.6634 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 0.0001827 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0 Moderately Informative Direct
Biological Process (BP) response to organic substance 9.966e-14 Moderately Informative Direct
Biological Process (BP) macromolecule localization 2.663e-05 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 0.0004104 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.07024 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.9631 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.3533 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.2431 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.2039 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.4671 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.5674 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.3547 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.3159 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.8045 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.01289 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.0514 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.7033 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.2309 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.1148 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.06906 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.006803 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.3122 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 0.4922 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.5618 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9546 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2284 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.02938 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.1406 Moderately Informative Inherited
Biological Process (BP) organic substance catabolic process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.171 Moderately Informative Inherited
Biological Process (BP) cytoskeleton organization 5.565e-05 Informative Direct
Biological Process (BP) response to hormone stimulus 0 Informative Direct
Biological Process (BP) regulation of intracellular protein kinase cascade 1.956e-06 Informative Direct
Biological Process (BP) phosphorylation 4.269e-05 Informative Direct
Biological Process (BP) response to nutrient levels 0.0007938 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0005174 Informative Direct
Biological Process (BP) tube development 0.1537 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.2881 Informative Inherited
Biological Process (BP) generation of neurons 0.9688 Informative Inherited
Biological Process (BP) organelle localization 0.01026 Informative Inherited
Biological Process (BP) cell cycle process 0.4642 Informative Inherited
Biological Process (BP) microtubule-based process 0.004181 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.7228 Informative Inherited
Biological Process (BP) reproductive system development 0.03462 Informative Inherited
Biological Process (BP) sensory organ development 0.02556 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.1765 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.005168 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 0.05332 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.2048 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.1658 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1875 Informative Inherited
Biological Process (BP) epithelium development 0.01692 Informative Inherited
Biological Process (BP) regulation of cell development 0.5532 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.004758 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.00444 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.03785 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.6586 Informative Inherited
Biological Process (BP) response to lipid 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.1716 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.00742 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.07956 Informative Inherited
Biological Process (BP) sexual reproduction 0.8181 Informative Inherited
Biological Process (BP) single organism reproductive process 0.597 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 1 Informative Inherited
Biological Process (BP) programmed cell death 0.7921 Informative Inherited
Biological Process (BP) cellular component disassembly 0.007028 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.3941 Informative Inherited
Biological Process (BP) cellular macromolecule catabolic process 0.1792 Informative Inherited
Biological Process (BP) DNA metabolic process 0.5086 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.0164 Informative Inherited
Biological Process (BP) organ morphogenesis 0.04521 Informative Inherited
Biological Process (BP) DNA catabolic process 7.616e-05 Highly Informative Direct
Biological Process (BP) protein phosphorylation 1.47e-06 Highly Informative Direct
Biological Process (BP) autophagy 3.577e-08 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0 Highly Informative Direct
Biological Process (BP) cellular response to starvation 1.792e-05 Highly Informative Direct
Biological Process (BP) post-embryonic development 0.0001843 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 6.328e-06 Highly Informative Direct
Biological Process (BP) cell junction organization 4.918e-10 Highly Informative Direct
Biological Process (BP) positive regulation of cell differentiation 0.0001347 Highly Informative Direct
Biological Process (BP) photoreceptor cell differentiation 8.65e-05 Highly Informative Direct
Biological Process (BP) post-embryonic organ development 0.0003054 Highly Informative Direct
Biological Process (BP) eye morphogenesis 2.511e-06 Highly Informative Direct
Biological Process (BP) neural precursor cell proliferation 2.748e-06 Highly Informative Direct
Biological Process (BP) stem cell proliferation 6.482e-06 Highly Informative Direct
Biological Process (BP) execution phase of apoptosis 1.669e-10 Highly Informative Direct
Biological Process (BP) respiratory system development 0.1573 Highly Informative Inherited
Biological Process (BP) branching morphogenesis of an epithelial tube 0.2195 Highly Informative Inherited
Biological Process (BP) cell division 0.003904 Highly Informative Inherited
Biological Process (BP) cell fate commitment 0.1887 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.08567 Highly Informative Inherited
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0.003273 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.03915 Highly Informative Inherited
Biological Process (BP) learning or memory 0.003792 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.008794 Highly Informative Inherited
Biological Process (BP) female gamete generation 0.001761 Highly Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.01373 Highly Informative Inherited
Biological Process (BP) developmental maturation 0.001105 Highly Informative Inherited
Molecular Function (MF) binding 1.049e-08 Least Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 2.569e-10 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.006233 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.05933 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding transcription factor activity 0 Informative Direct
Molecular Function (MF) kinase activity 4.393e-12 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 2.737e-13 Informative Direct
Molecular Function (MF) enzyme binding 0.0002941 Informative Direct
Molecular Function (MF) enzyme activator activity 0.18 Informative Inherited
Molecular Function (MF) lipid binding 0.04661 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 9.624e-05 Highly Informative Direct
Molecular Function (MF) kinase binding 0.0001959 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.000248 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.01261 Least Informative Inherited
Cellular Component (CC) membrane 0.1669 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.1781 Least Informative Inherited
Cellular Component (CC) cytosol 0.0003996 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.01821 Moderately Informative Inherited
Cellular Component (CC) cell-cell junction 1.436e-11 Informative Direct
Cellular Component (CC) cell cortex 1.525e-11 Informative Direct
Cellular Component (CC) apical plasma membrane 1.215e-13 Highly Informative Direct
Cellular Component (CC) apical junction complex 8.366e-08 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 homeostasis0.7905Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.06141Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.06141Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal circulating leptin level0.0005299InformativeDirect
Mammalian Phenotype (MP)abnormal fatty acid level0.0005184Highly 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 kinases5.087e-14Moderately InformativeDirect
Enzyme Commission (EC)Protein kinase C4.81e-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 processDifferentiation0.0005146Moderately InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome1.248e-11Moderately InformativeDirect
Cellular componentCell junction2.75e-08Moderately InformativeDirect
Cellular componentCytoplasmic vesicle2.89e-05Moderately InformativeDirect
Cellular componentLysosome5.056e-08InformativeDirect
Cellular componentLipid droplet2.289e-11Highly InformativeDirect
Cellular componentTight junction4.916e-08Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0002615Least InformativeDirect
DiseaseProto-oncogene0.0001303Moderately InformativeDirect
DomainZinc-finger2.119e-06Moderately InformativeDirect
DomainSH3 domain4.321e-13InformativeDirect
DomainTPR repeat3.275e-07Highly InformativeDirect
Molecular functionDNA-binding0Moderately InformativeDirect
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationActivator9.18e-05Moderately InformativeDirect
Post-translational modificationKinase0.0008341Moderately InformativeDirect
Post-translational modificationSerine/threonine-protein kinase2.158e-14InformativeDirect
Post-translational modificationPhosphoprotein1.63e-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 ]