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 (457) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 1,483 1,225 5
Proteins 1,472 1,220 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 process1.804e-117.714e-11Least InformativeDirect
Biological Process (BP)regulation of cellular process6.167e-151.862e-08Least InformativeDirect
Biological Process (BP)response to stimulus3.434e-050.2338Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.53321Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0016753.695e-10Least InformativeInherited
Biological Process (BP)cellular response to stress2.668e-057.247e-06Moderately InformativeDirect
Biological Process (BP)negative regulation of cellular process2.168e-097.861e-12Moderately InformativeDirect
Biological Process (BP)regulation of catalytic activity0.00015699.12e-05Moderately InformativeDirect
Biological Process (BP)regulation of cellular component organization1.207e-143.726e-09Moderately InformativeDirect
Biological Process (BP)regulation of protein metabolic process5.897e-105.957e-05Moderately InformativeDirect
Biological Process (BP)regulation of phosphate metabolic process10.0009871Moderately InformativeInherited
Biological Process (BP)signal transduction0.53061Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.29171Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.016970.4299Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.0013380.02563Moderately InformativeInherited
Biological Process (BP)organelle organization0.034052.074e-09Moderately InformativeInherited
Biological Process (BP)cell cycle process00InformativeDirect
Biological Process (BP)regulation of organelle organization01.931e-15InformativeDirect
Biological Process (BP)intracellular signal transduction5.968e-080.0002169InformativeDirect
Biological Process (BP)negative regulation of catalytic activity0.00020522.028e-05InformativeDirect
Biological Process (BP)positive regulation of phosphate metabolic process2.913e-104.55e-06InformativeDirect
Biological Process (BP)negative regulation of cellular component organization05.288e-13InformativeDirect
Biological Process (BP)negative regulation of protein metabolic process9.172e-143.142e-09InformativeDirect
Biological Process (BP)chromosome organization5.339e-066.139e-13InformativeDirect
Biological Process (BP)regulation of cell cycle00InformativeDirect
Biological Process (BP)response to DNA damage stimulus0.0022770.002832InformativeInherited
Biological Process (BP)regulation of protein phosphorylation0.16660.1438InformativeInherited
Biological Process (BP)positive regulation of protein metabolic process0.0024530.0006672InformativeInherited
Biological Process (BP)chromosome segregation2.298e-060Highly InformativeDirect
Biological Process (BP)regulation of mitosis9.828e-136.103e-07Highly InformativeDirect
Biological Process (BP)regulation of proteolysis1.56e-074.128e-09Highly InformativeDirect
Biological Process (BP)negative regulation of cellular catabolic process2.133e-091.048e-12Highly InformativeDirect
Biological Process (BP)regulation of protein ubiquitination03.798e-13Highly InformativeDirect
Biological Process (BP)negative regulation of protein modification process1.207e-145.737e-10Highly InformativeDirect
Biological Process (BP)regulation of protein catabolic process04.755e-14Highly InformativeDirect
Biological Process (BP)negative regulation of cell cycle00Highly InformativeDirect
Biological Process (BP)regulation of ligase activity8.822e-122.726e-13Highly InformativeDirect
Biological Process (BP)cell cycle checkpoint10.7486Highly InformativeInherited
Biological Process (BP)negative regulation of mitotic cell cycle phase transition00.1192Highly InformativeInherited
Biological Process (BP)mitosis0.053030.8696Highly InformativeInherited
Cellular Component (CC)intracellular non-membrane-bounded organelle00Least InformativeDirect
Cellular Component (CC)protein complex01.126e-09Least InformativeDirect
Cellular Component (CC)intracellular organelle part09.095e-06Least InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle10.7368Least InformativeInherited
Cellular Component (CC)nuclear part9.084e-070.0001819Moderately InformativeDirect
Cellular Component (CC)cytoskeleton0.020431Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex2.291e-091.129e-05InformativeDirect
Cellular Component (CC)chromosome1.248e-080InformativeDirect
Cellular Component (CC)microtubule cytoskeleton01.959e-14InformativeDirect
Cellular Component (CC)nuclear ubiquitin ligase complex5.8e-081.728e-07Highly InformativeDirect
Cellular Component (CC)kinetochore00Highly InformativeDirect
Cellular Component (CC)spindle02.616e-10Highly InformativeDirect
Cellular Component (CC)cullin-RING ubiquitin ligase complex2.675e-131.69e-08Highly InformativeDirect
Cellular Component (CC)DNA polymerase complex00Highly 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 1.479e-05 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.0001583 Least Informative Direct
Biological Process (BP) single-organism cellular process 7.714e-11 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1.144e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 1.862e-08 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 3.695e-10 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 4.163e-05 Least Informative Direct
Biological Process (BP) response to stimulus 0.2338 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.5786 Least Informative Inherited
Biological Process (BP) developmental process 0.5548 Least Informative Inherited
Biological Process (BP) reproduction 5.484e-11 Moderately Informative Direct
Biological Process (BP) organelle organization 2.074e-09 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.0009871 Moderately Informative Direct
Biological Process (BP) cellular response to stress 7.247e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 7.861e-12 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 9.12e-05 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 3.726e-09 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 5.957e-05 Moderately Informative Direct
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 0.4299 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.052 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.02563 Moderately Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 3.307e-07 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) regulation of organelle organization 1.931e-15 Informative Direct
Biological Process (BP) intracellular signal transduction 0.0002169 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 2.028e-05 Informative Direct
Biological Process (BP) single organism reproductive process 0.0008686 Informative Direct
Biological Process (BP) positive regulation of phosphate metabolic process 4.55e-06 Informative Direct
Biological Process (BP) cellular process involved in reproduction 1.773e-14 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 5.288e-13 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 0.0006672 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 3.142e-09 Informative Direct
Biological Process (BP) chromosome organization 6.139e-13 Informative Direct
Biological Process (BP) regulation of cell cycle 0 Informative Direct
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 1.915e-07 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0.002832 Informative Inherited
Biological Process (BP) sexual reproduction 0.4074 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.01624 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.1438 Informative Inherited
Biological Process (BP) chromosome segregation 0 Highly Informative Direct
Biological Process (BP) regulation of mitosis 6.103e-07 Highly Informative Direct
Biological Process (BP) meiosis 4.156e-07 Highly Informative Direct
Biological Process (BP) spermatogenesis 5.921e-10 Highly Informative Direct
Biological Process (BP) female gamete generation 2.447e-10 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 4.128e-09 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 1.048e-12 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 3.798e-13 Highly Informative Direct
Biological Process (BP) negative regulation of protein modification process 5.737e-10 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 4.755e-14 Highly Informative Direct
Biological Process (BP) negative regulation of cell cycle 0 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 2.726e-13 Highly Informative Direct
Biological Process (BP) regulation of reproductive process 3.354e-09 Highly Informative Direct
Biological Process (BP) cell cycle phase 0.006457 Highly Informative Inherited
Biological Process (BP) cell cycle checkpoint 0.7486 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.1192 Highly Informative Inherited
Biological Process (BP) mitosis 0.8696 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0 Least Informative Direct
Cellular Component (CC) protein complex 1.126e-09 Least Informative Direct
Cellular Component (CC) intracellular organelle part 9.095e-06 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.7368 Least Informative Inherited
Cellular Component (CC) nuclear part 0.0001819 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.03449 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 1.129e-05 Informative Direct
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 1.959e-14 Informative Direct
Cellular Component (CC) nuclear ubiquitin ligase complex 1.728e-07 Highly Informative Direct
Cellular Component (CC) kinetochore 0 Highly Informative Direct
Cellular Component (CC) spindle 2.616e-10 Highly Informative Direct
Cellular Component (CC) cullin-RING ubiquitin ligase complex 1.69e-08 Highly Informative Direct
Cellular Component (CC) DNA polymerase complex 0 Highly Informative Direct
Cellular Component (CC) condensed chromosome 0.05887 Highly Informative Inherited
Cellular Component (CC) nuclear chromosome part 0.001969 Highly Informative Inherited

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 morphology0.004192Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.0107Moderately InformativeInherited
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.01383Moderately InformativeInherited
Mammalian Phenotype (MP)decreased germ cell number0.0002367InformativeDirect
Mammalian Phenotype (MP)abnormal male germ cell morphology0.000379InformativeDirect
Mammalian Phenotype (MP)abnormal sex determination0.0004431InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.0005751InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.0009285InformativeDirect
Mammalian Phenotype (MP)abnormal sex gland morphology0.001463InformativeInherited
Mammalian Phenotype (MP)abnormal fertility/fecundity0.007242InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis3.534e-06Highly InformativeDirect
Mammalian Phenotype (MP)azoospermia6.617e-06Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight3.768e-05Highly InformativeDirect
Mammalian Phenotype (MP)small testis0.0002367Highly InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.001734Highly 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 variant2.604e-05Moderately InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0InformativeDirect
Worm Phenotype (WP)meiotic chromosome organization variant9.872e-08InformativeDirect
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) 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 cycle9.566e-15Moderately InformativeDirect
Biological processDifferentiation2.374e-12Moderately InformativeDirect
Biological processDNA damage3.572e-07Moderately InformativeDirect
Biological processTranscription regulation0.0001585Moderately InformativeDirect
Biological processMeiosis0InformativeDirect
Biological processMitosis0InformativeDirect
Biological processSpermatogenesis0Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton3.173e-13Moderately InformativeDirect
Cellular componentChromosome0InformativeDirect
Post-translational modificationPhosphoprotein5.879e-08Least 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 ]