SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (517) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 1,677 4,457 5
Proteins 1,662 4,410 5


Functional annotation
General category Processes_IC
Detailed category Cell cycle, Apoptosis

Document:
Function annotation of SCOP domain superfamilies

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 cell morphology0Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal reproductive system morphology0.004741Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.009401Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.0199Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal sex determination0.0004121InformativeDirect
Mammalian Phenotype (MP)abnormal spermatogenesis0.0004621InformativeDirect
Mammalian Phenotype (MP)abnormal male reproductive gland morphology0.0009146InformativeDirect
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.001058InformativeInherited
Mammalian Phenotype (MP)abnormal fertility/fecundity0.00632InformativeInherited
Mammalian Phenotype (MP)abnormal germ cell morphology0.1735InformativeInherited
Mammalian Phenotype (MP)absent germ cells0.000008929Highly InformativeDirect
Mammalian Phenotype (MP)abnormal testis weight0.00003175Highly InformativeDirect
Mammalian Phenotype (MP)abnormal sperm number0.000116Highly InformativeDirect
Mammalian Phenotype (MP)decreased male germ cell number0.0001284Highly InformativeDirect
Mammalian Phenotype (MP)abnormal gametes0.0002036Highly InformativeDirect
Mammalian Phenotype (MP)small testis0.0002358Highly InformativeDirect
Mammalian Phenotype (MP)infertility0.001346Highly InformativeInherited
Mammalian Phenotype (MP)abnormal male reproductive system physiology0.001618Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)blast cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0Moderately InformativeDirect
Worm Phenotype (WP)germ cell development variant0Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0Moderately InformativeDirect
Worm Phenotype (WP)chromosome segregation variant0InformativeDirect
Worm Phenotype (WP)meiotic chromosome organization variant0InformativeDirect
Worm Phenotype (WP)X chromosome nondisjunction0Highly InformativeDirect

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

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)trunk0Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical system1Least InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)testis0Moderately InformativeDirect

Document: XA 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

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 · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) ]

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 3 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 3 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 · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Internal database links ]