SUPERFAMILY 1.75 HMM library and genome assignments server

The spindle assembly checkpoint protein mad2 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   The spindle assembly checkpoint protein mad2 [ 56018]
Superfamily:   The spindle assembly checkpoint protein mad2 [ 56019]
Families:   The spindle assembly checkpoint protein mad2 [ 56020]


Superfamily statistics
Genomes (509) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,652 1,796 5
Proteins 1,637 1,783 5


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)
Biological Process (BP)single-organism cellular process0.00023520.000001213Least InformativeDirect
Biological Process (BP)regulation of cellular process0.00000000000026230.0000001183Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0014850.000000000534Least InformativeInherited
Biological Process (BP)positive regulation of biological process0.34321Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.0000022220.2204Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.012810.00005123Least InformativeInherited
Biological Process (BP)response to stimulus0.0000032120.1371Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.005530.000003835Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.0052940.000002934Least InformativeInherited
Biological Process (BP)cellular macromolecule metabolic process0.00029060.7974Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.81230.06619Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0092780.00001164Least InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.0000000050940.0008452Moderately InformativeDirect
Biological Process (BP)cellular response to stress0.000025630.000008406Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.00000001360.00000000005603Moderately InformativeDirect
Biological Process (BP)regulation of cellular component organization0.00000000000010920Moderately InformativeDirect
Biological Process (BP)regulation of protein metabolic process00.000000001622Moderately InformativeDirect
Biological Process (BP)regulation of gene expression00.03835Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity0.13240.03036Moderately InformativeInherited
Biological Process (BP)signal transduction0.47061Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.26180.6115Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.31791Moderately InformativeInherited
Biological Process (BP)regulation of phosphorus metabolic process0.3850.2612Moderately InformativeInherited
Biological Process (BP)single-organism organelle organization0.010180.000000000005512Moderately InformativeInherited
Biological Process (BP)DNA repair0.0000018860.0001347InformativeDirect
Biological Process (BP)regulation of cell cycle process0.000014840.000001868InformativeDirect
Biological Process (BP)negative regulation of protein processing00InformativeDirect
Biological Process (BP)cell cycle process00InformativeDirect
Biological Process (BP)regulation of cellular catabolic process00InformativeDirect
Biological Process (BP)negative regulation of cellular protein metabolic process00InformativeDirect
Biological Process (BP)regulation of organelle organization00InformativeDirect
Biological Process (BP)intracellular signal transduction0.000000061350.0002634InformativeDirect
Biological Process (BP)positive regulation of phosphate metabolic process0.000000017470.0002109InformativeDirect
Biological Process (BP)negative regulation of cellular component organization00InformativeDirect
Biological Process (BP)chromosome organization0.0001160.00000000001022InformativeDirect
Biological Process (BP)regulation of transferase activity0.00010290.0007982InformativeDirect
Biological Process (BP)regulation of mitotic cell cycle0.000002960.1054InformativeInherited
Biological Process (BP)mitotic cell cycle01InformativeInherited
Biological Process (BP)negative regulation of catalytic activity0.031760.00102InformativeInherited
Biological Process (BP)regulation of protein phosphorylation0.048960.03893InformativeInherited
Biological Process (BP)positive regulation of cellular protein metabolic process0.11590.07915InformativeInherited
Biological Process (BP)regulation of growth0.0051930.03645InformativeInherited
Biological Process (BP)organelle fission0.0021090InformativeInherited
Biological Process (BP)cell division0.001460InformativeInherited
Biological Process (BP)nuclear division0.00000051750Highly InformativeDirect
Biological Process (BP)chromosome segregation0.000011280Highly InformativeDirect
Biological Process (BP)negative regulation of cellular catabolic process00Highly InformativeDirect
Biological Process (BP)regulation of protein ubiquitination00.000000000000544Highly InformativeDirect
Biological Process (BP)spindle checkpoint0.000027370.0002012Highly InformativeDirect
Biological Process (BP)negative regulation of protein catabolic process00Highly InformativeDirect
Biological Process (BP)regulation of ligase activity0.000000000011510.0000000000002892Highly InformativeDirect
Biological Process (BP)negative regulation of transferase activity00.00000000002107Highly InformativeDirect
Biological Process (BP)negative regulation of cell division00Highly InformativeDirect
Biological Process (BP)regulation of nuclear division00Highly InformativeDirect
Biological Process (BP)negative regulation of mitotic cell cycle phase transition00Highly InformativeDirect
Biological Process (BP)regulation of proteolysis involved in cellular protein catabolic process00Highly InformativeDirect
Biological Process (BP)negative regulation of chromosome organization00.0000003672Highly InformativeDirect
Cellular Component (CC)non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)intracellular organelle part00.000006932Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle10.5039Least InformativeInherited
Cellular Component (CC)protein complex00.1005Least InformativeInherited
Cellular Component (CC)nuclear part0.0000017670.000175Moderately InformativeDirect
Cellular Component (CC)transferase complex0.000000000028040.0000006796Moderately InformativeDirect
Cellular Component (CC)cytoskeleton0.0031210.8385Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.14930.02909Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex0.0000000040320.00001752InformativeDirect
Cellular Component (CC)chromosome0.0000000020120InformativeDirect
Cellular Component (CC)microtubule cytoskeleton00.000000000000003071InformativeDirect
Cellular Component (CC)nuclear ubiquitin ligase complex0.00000002690.0000007158Highly InformativeDirect
Cellular Component (CC)chromosome, centromeric region00Highly InformativeDirect
Cellular Component (CC)spindle0.00000000000026880.0000001068Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex00Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.00045380.0003714Highly 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) cellular aromatic compound metabolic process 0.000003835 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00005123 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.000001213 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000002934 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.0000001183 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000000000534 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00001164 Least Informative Direct
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.4939 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2204 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.06619 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1371 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.7974 Least Informative Inherited
Biological Process (BP) developmental process 0.5393 Least Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.0008452 Moderately Informative Direct
Biological Process (BP) reproductive process 0.0001898 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.000008406 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00000000005603 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000000001622 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.00072 Moderately Informative Direct
Biological Process (BP) single-organism organelle organization 0.000000000005512 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 0.03835 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.03036 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.6115 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.7833 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.04479 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 0.2612 Moderately Informative Inherited
Biological Process (BP) DNA repair 0.0001347 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.00002619 Informative Direct
Biological Process (BP) regulation of cell cycle process 0.000001868 Informative Direct
Biological Process (BP) negative regulation of protein processing 0 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0.000007995 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0 Informative Direct
Biological Process (BP) regulation of organelle organization 0 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0002634 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.0002109 Informative Direct
Biological Process (BP) organelle fission 0 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0 Informative Direct
Biological Process (BP) chromosome organization 0.00000000001022 Informative Direct
Biological Process (BP) cell division 0 Informative Direct
Biological Process (BP) regulation of transferase activity 0.0007982 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.0000003535 Informative Direct
Biological Process (BP) regulation of mitotic cell cycle 0.1054 Informative Inherited
Biological Process (BP) mitotic cell cycle 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.00102 Informative Inherited
Biological Process (BP) sexual reproduction 1 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.01049 Informative Inherited
Biological Process (BP) single organism reproductive process 0.002046 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.03893 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.07915 Informative Inherited
Biological Process (BP) regulation of growth 0.03645 Informative Inherited
Biological Process (BP) nuclear division 0 Highly Informative Direct
Biological Process (BP) in utero embryonic development 0.000000107 Highly Informative Direct
Biological Process (BP) chromosome segregation 0 Highly Informative Direct
Biological Process (BP) germ cell development 0.00000001855 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.000000000668 Highly Informative Direct
Biological Process (BP) female gamete generation 0.0000000003152 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 0.000000000000544 Highly Informative Direct
Biological Process (BP) spindle checkpoint 0.0002012 Highly Informative Direct
Biological Process (BP) negative regulation of protein catabolic process 0 Highly Informative Direct
Biological Process (BP) meiotic cell cycle 0.00000007679 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 0.0000000000002892 Highly Informative Direct
Biological Process (BP) negative regulation of transferase activity 0.00000000002107 Highly Informative Direct
Biological Process (BP) negative regulation of cell division 0 Highly Informative Direct
Biological Process (BP) regulation of nuclear division 0 Highly Informative Direct
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0 Highly Informative Direct
Biological Process (BP) regulation of proteolysis involved in cellular protein catabolic process 0 Highly Informative Direct
Biological Process (BP) negative regulation of chromosome organization 0.0000003672 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000006932 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.5039 Least Informative Inherited
Cellular Component (CC) protein complex 0.1005 Least Informative Inherited
Cellular Component (CC) nuclear part 0.000175 Moderately Informative Direct
Cellular Component (CC) transferase complex 0.0000006796 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 0.8385 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.02909 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0.00001752 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.000000000000003071 Informative Direct
Cellular Component (CC) nuclear ubiquitin ligase complex 0.0000007158 Highly Informative Direct
Cellular Component (CC) chromosome, centromeric region 0 Highly Informative Direct
Cellular Component (CC) spindle 0.0000001068 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0003714 Highly Informative Direct

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0Least InformativeDirect
Mammalian Phenotype (MP)abnormal cell death0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system morphology0.004154Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.01069Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.01832Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gametes0.0002396InformativeDirect
Mammalian Phenotype (MP)decreased germ cell number0.0002396InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.0003826InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.0004396InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.0005665InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.0009224InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.001423InformativeInherited
Mammalian Phenotype (MP)abnormal fertility/fecundity0.007274InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.000003477Highly InformativeDirect
Mammalian Phenotype (MP)azoospermia0.00000708Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight0.0000392Highly InformativeDirect
Mammalian Phenotype (MP)small testis0.0002462Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.001852Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0.00002604Moderately InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0InformativeDirect
Worm Phenotype (WP)meiotic chromosome organization variant0.00000009872InformativeDirect
Worm Phenotype (WP)meiotic chromosome segregation variant0Highly InformativeDirect
Worm Phenotype (WP)aneuploidy0.02146Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect

Document: YP annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect

Document: AP annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.000000000000007784Moderately InformativeDirect
Biological processDifferentiation0.000000000002726Moderately InformativeDirect
Biological processDNA damage0.0000003411Moderately InformativeDirect
Biological processTranscription regulation0.0001856Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processMitosis0InformativeDirect
Biological processSpermatogenesis0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0.0000000000003488Moderately InformativeDirect
Cellular componentChromosome0InformativeDirect
Post-translational modificationPhosphoprotein0.00000006254Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR003511 SSF56019 Protein matches
Abstract The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognise chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. Hop1 is a meiosis-specific protein, Rev7 is required for DNA damage induced mutagenesis, and MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.

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-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · 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 1 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 The spindle assembly checkpoint protein mad2 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 1 hidden Markov models representing the The spindle assembly checkpoint protein mad2 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-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Arabidopsis Plant Ontology (AP) · UniProtKB KeyWords (KW) · Internal database links ]