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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 (508) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 1,649 1,796 5
Proteins 1,634 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 process0.0000000000047420.00000000003645Least InformativeDirect
Biological Process (BP)regulation of cellular process0.0000000000000290.00000003834Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.00042020.00000000009409Least InformativeDirect
Biological Process (BP)heterocycle metabolic process0.0049260.000003245Least InformativeInherited
Biological Process (BP)response to stimulus0.0000071950.1598Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.49941Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.0051350.00000424Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process0.014690.00005638Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0090820.00001303Least InformativeInherited
Biological Process (BP)cellular response to stress0.0000084260.000002519Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process0.0000000019720.00000000001228Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00011910.00009806Moderately InformativeDirect
Biological Process (BP)regulation of cellular component organization0.0000000000000063980.000000004727Moderately InformativeDirect
Biological Process (BP)regulation of protein metabolic process0.0000000010730.00007772Moderately InformativeDirect
Biological Process (BP)regulation of phosphate metabolic process10.00113Moderately InformativeInherited
Biological Process (BP)signal transduction0.56051Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.31381Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.017390.4684Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.0014090.03108Moderately InformativeInherited
Biological Process (BP)organelle organization0.016380.0000000007099Moderately InformativeInherited
Biological Process (BP)regulation of cell cycle process0.0000089130.000001433InformativeDirect
Biological Process (BP)cell cycle process00InformativeDirect
Biological Process (BP)regulation of cellular catabolic process0.00000050220.000000832InformativeDirect
Biological Process (BP)regulation of organelle organization00.000000000000003755InformativeDirect
Biological Process (BP)intracellular signal transduction0.000000065920.0001939InformativeDirect
Biological Process (BP)negative regulation of catalytic activity0.00026760.00002164InformativeDirect
Biological Process (BP)positive regulation of phosphate metabolic process0.00000000043130.000005633InformativeDirect
Biological Process (BP)negative regulation of cellular component organization00.0000000000005501InformativeDirect
Biological Process (BP)negative regulation of protein metabolic process0.00000000000015630.000000004475InformativeDirect
Biological Process (BP)chromosome organization0.000033370.000000000009673InformativeDirect
Biological Process (BP)mitotic cell cycle0.034111InformativeInherited
Biological Process (BP)response to DNA damage stimulus0.00087270.001258InformativeInherited
Biological Process (BP)regulation of mitotic cell cycle0.00000038440.03488InformativeInherited
Biological Process (BP)regulation of protein phosphorylation0.17690.145InformativeInherited
Biological Process (BP)positive regulation of protein metabolic process0.002360.0007103InformativeInherited
Biological Process (BP)regulation of growth0.0075680.04539InformativeInherited
Biological Process (BP)chromosome segregation0.0000027490Highly InformativeDirect
Biological Process (BP)regulation of mitosis0.00000000000073130.0000006261Highly InformativeDirect
Biological Process (BP)regulation of proteolysis0.0000001150.000000003565Highly InformativeDirect
Biological Process (BP)negative regulation of cellular catabolic process0.0000000035650.000000000003163Highly InformativeDirect
Biological Process (BP)regulation of protein ubiquitination00.0000000000005096Highly InformativeDirect
Biological Process (BP)negative regulation of protein modification process0.000000000000024560.000000001034Highly InformativeDirect
Biological Process (BP)spindle checkpoint0.000013110.00008234Highly InformativeDirect
Biological Process (BP)regulation of protein catabolic process00.0000000000001427Highly InformativeDirect
Biological Process (BP)negative regulation of cell cycle00Highly InformativeDirect
Biological Process (BP)regulation of ligase activity0.000000000011860.0000000000003108Highly InformativeDirect
Biological Process (BP)negative regulation of mitotic cell cycle phase transition00.1422Highly InformativeInherited
Biological Process (BP)mitosis0.083080.939Highly InformativeInherited
Cellular Component (CC)intracellular non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)protein complex00.000000001611Least InformativeDirect
Cellular Component (CC)intracellular organelle part00.000004898Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle10.6345Least InformativeInherited
Cellular Component (CC)cytoskeleton0.0094260.8981Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.22560.09466Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0000071170.001017Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex0.0000000035920.00001246InformativeDirect
Cellular Component (CC)chromosome0.00000000083680InformativeDirect
Cellular Component (CC)microtubule cytoskeleton00.000000000000003095InformativeDirect
Cellular Component (CC)nuclear ubiquitin ligase complex0.000000023090.00000006749Highly InformativeDirect
Cellular Component (CC)kinetochore00Highly InformativeDirect
Cellular Component (CC)spindle00.0000000001633Highly InformativeDirect
Cellular Component (CC)cullin-RING ubiquitin ligase complex0.00000000000032110.00000001786Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex00Highly InformativeDirect
Cellular Component (CC)nuclear chromosome part0.00053250.0002911Highly 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 0.00000424 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.00005638 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.00000000003645 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 0.000003245 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.00000003834 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.00000000009409 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.00001303 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.6037 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1598 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) developmental process 0.8884 Least Informative Inherited
Biological Process (BP) reproduction 0.00000000006097 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0000000007099 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.000002519 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.00000000001228 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.00009806 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.000000004727 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.00007772 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.00113 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.4684 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.07341 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.03108 Moderately Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.00002924 Informative Direct
Biological Process (BP) regulation of cell cycle process 0.000001433 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0.000000832 Informative Direct
Biological Process (BP) regulation of organelle organization 0.000000000000003755 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0001939 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.00002164 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 0.000005633 Informative Direct
Biological Process (BP) cellular process involved in reproduction 0.00000000000002793 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0000000000005501 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 0.0007103 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 0.000000004475 Informative Direct
Biological Process (BP) chromosome organization 0.000000000009673 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.0000003588 Informative Direct
Biological Process (BP) mitotic cell cycle 1 Informative Inherited
Biological Process (BP) response to DNA damage stimulus 0.001258 Informative Inherited
Biological Process (BP) sexual reproduction 0.4212 Informative Inherited
Biological Process (BP) single organism reproductive process 0.001172 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.01685 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.03488 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.145 Informative Inherited
Biological Process (BP) regulation of growth 0.04539 Informative Inherited
Biological Process (BP) chromosome segregation 0 Highly Informative Direct
Biological Process (BP) regulation of mitosis 0.0000006261 Highly Informative Direct
Biological Process (BP) meiosis 0.0000002834 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0000000007895 Highly Informative Direct
Biological Process (BP) female gamete generation 0.0000000003819 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 0.000000003565 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 0.000000000003163 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 0.0000000000005096 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 0.000000001034 Highly Informative Direct
Biological Process (BP) spindle checkpoint 0.00008234 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0.0000000000001427 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 0 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 0.0000000000003108 Highly Informative Direct
Biological Process (BP) regulation of reproductive process 0.000000003157 Highly Informative Direct
Biological Process (BP) cell cycle phase 0.002043 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.1422 Highly Informative Inherited
Biological Process (BP) mitosis 0.939 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) protein complex 0.000000001611 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000004898 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.6345 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.8981 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.09466 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.001017 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0.00001246 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.000000000000003095 Informative Direct
Cellular Component (CC) nuclear ubiquitin ligase complex 0.00000006749 Highly Informative Direct
Cellular Component (CC) kinetochore 0 Highly Informative Direct
Cellular Component (CC) spindle 0.0000000001633 Highly Informative Direct
Cellular Component (CC) cullin-RING ubiquitin ligase complex 0.00000001786 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 0.0002911 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 ]