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MIR domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   beta-Trefoil [ 50352] (8)
Superfamily:   MIR domain [ 82109]
Families:   MIR domain [ 82110] (2)


Superfamily statistics
Genomes (577) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,237 3,855 2
Proteins 2,539 3,088 2


Functional annotation
General category Metabolism
Detailed category Transferases

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Cellular Component (CC)intracellular membrane-bounded organelle0.011370.04597Least InformativeInherited
Cellular Component (CC)cytoplasmic part0.019150.000000000001901Least InformativeInherited
Cellular Component (CC)endoplasmic reticulum0.0000089940Moderately 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) response to stimulus 0.000281 Least Informative Direct
Biological Process (BP) biosynthetic process 0.000000002976 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0000006497 Least Informative Direct
Biological Process (BP) macromolecule metabolic process 0.00005391 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00006744 Least Informative Direct
Biological Process (BP) biological regulation 0.0002177 Least Informative Direct
Biological Process (BP) primary metabolic process 0.0005361 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.196 Least Informative Inherited
Biological Process (BP) carbohydrate derivative biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) ion transport 0.0000000001062 Moderately Informative Direct
Biological Process (BP) cellular response to chemical stimulus 0.00000008679 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.000001173 Moderately Informative Direct
Biological Process (BP) cellular localization 0.000005432 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.000006251 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.152 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.3618 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.07246 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.3301 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.3325 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 0.2026 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.09279 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.01872 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.1088 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.001263 Moderately Informative Inherited
Biological Process (BP) response to stress 0.09206 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) system development 0.0879 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.02733 Moderately Informative Inherited
Biological Process (BP) ion homeostasis 0 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0 Informative Direct
Biological Process (BP) metal ion transport 0 Informative Direct
Biological Process (BP) regulation of system process 0.0000000002361 Informative Direct
Biological Process (BP) transmembrane transport 0.0000000004089 Informative Direct
Biological Process (BP) response to organic cyclic compound 0.00000183 Informative Direct
Biological Process (BP) system process 0.000008832 Informative Direct
Biological Process (BP) response to nitrogen compound 0.00002653 Informative Direct
Biological Process (BP) animal organ morphogenesis 0.0001217 Informative Direct
Biological Process (BP) protein oligomerization 0.0001696 Informative Direct
Biological Process (BP) circulatory system development 0.0004269 Informative Direct
Biological Process (BP) regulation of protein localization 0.6694 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.04678 Informative Inherited
Biological Process (BP) cell development 0.06957 Informative Inherited
Biological Process (BP) regulation of secretion 0.009817 Informative Inherited
Biological Process (BP) growth 0.002535 Informative Inherited
Biological Process (BP) cell death 0.002236 Informative Inherited
Biological Process (BP) response to inorganic substance 0.2123 Informative Inherited
Biological Process (BP) glycoprotein metabolic process 0 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 0 Highly Informative Direct
Biological Process (BP) regulation of ion homeostasis 0 Highly Informative Direct
Biological Process (BP) divalent inorganic cation transport 0 Highly Informative Direct
Biological Process (BP) macromolecule glycosylation 0 Highly Informative Direct
Biological Process (BP) inorganic cation transmembrane transport 0 Highly Informative Direct
Biological Process (BP) negative regulation of homeostatic process 0 Highly Informative Direct
Biological Process (BP) cellular calcium ion homeostasis 0 Highly Informative Direct
Biological Process (BP) muscle system process 0.00000000004904 Highly Informative Direct
Biological Process (BP) response to calcium ion 0.000000002134 Highly Informative Direct
Biological Process (BP) cellular response to organonitrogen compound 0.000000002592 Highly Informative Direct
Biological Process (BP) muscle structure development 0.00000001017 Highly Informative Direct
Biological Process (BP) regulation of hormone secretion 0.000007247 Highly Informative Direct
Biological Process (BP) response to hypoxia 0.000007611 Highly Informative Direct
Biological Process (BP) response to organophosphorus 0.00001405 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.00001549 Highly Informative Direct
Biological Process (BP) regulation of peptide transport 0.00002648 Highly Informative Direct
Molecular Function (MF) transferase activity 0.00000006057 Least Informative Direct
Molecular Function (MF) binding 0.02455 Least Informative Inherited
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) protein binding 0.0002426 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0004195 Moderately Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) passive transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) molecular transducer activity 0 Informative Direct
Molecular Function (MF) transferase activity, transferring glycosyl groups 0 Informative Direct
Molecular Function (MF) signal transducer activity 0 Informative Direct
Molecular Function (MF) phospholipid binding 0.0006902 Informative Direct
Molecular Function (MF) transmembrane signaling receptor activity 0 Highly Informative Direct
Molecular Function (MF) gated channel activity 0 Highly Informative Direct
Molecular Function (MF) transferase activity, transferring hexosyl groups 0 Highly Informative Direct
Molecular Function (MF) ion channel activity 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000000001901 Least Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.00001163 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.04597 Least Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0 Moderately Informative Direct
Cellular Component (CC) organelle membrane 0.000001363 Moderately Informative Direct
Cellular Component (CC) vesicle 0.5388 Moderately Informative Inherited
Cellular Component (CC) transferase complex 0.04311 Moderately Informative Inherited
Cellular Component (CC) intrinsic component of membrane 1 Moderately Informative Inherited
Cellular Component (CC) endoplasmic reticulum membrane 0 Informative Direct
Cellular Component (CC) secretory vesicle 0.00000467 Informative Direct
Cellular Component (CC) sarcoplasm 0 Highly Informative Direct
Cellular Component (CC) myofibril 0.000000002455 Highly Informative Direct
Cellular Component (CC) contractile fiber part 0.000007329 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)Glycosyltransferases0Moderately InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Pace of progression0.04272Moderately InformativeInherited
Slow progression0.0005401InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.2457Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.3325Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.3555Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.398Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.5778Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.6213Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle physiology0.1607Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.167Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.1793Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle morphology0.2132Moderately InformativeInherited
Phenotypic Abnormality (PA)Decreased facial expression0.00007156InformativeDirect
Phenotypic Abnormality (PA)Muscular dystrophy0.0001242InformativeDirect
Phenotypic Abnormality (PA)Proximal muscle weakness0.00013InformativeDirect
Phenotypic Abnormality (PA)Cerebellar malformation0.002535InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hip bone0.01011InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb joint0.01199InformativeInherited
Phenotypic Abnormality (PA)Abnormality of prenatal development or birth0.02647InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.02918InformativeInherited
Phenotypic Abnormality (PA)Muscular hypotonia0.1635InformativeInherited
Phenotypic Abnormality (PA)Abnormal involuntary eye movements0.307InformativeInherited
Phenotypic Abnormality (PA)Myopathic facies0.000001003Highly InformativeDirect
Phenotypic Abnormality (PA)Myalgia0.0003174Highly InformativeDirect
Phenotypic Abnormality (PA)Muscle cramps0.0003306Highly InformativeDirect
Phenotypic Abnormality (PA)Hip dislocation0.000355Highly InformativeDirect
Phenotypic Abnormality (PA)Skeletal muscle hypertrophy0.0003807Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased fetal movement0.0005114Highly InformativeDirect
Phenotypic Abnormality (PA)Neonatal hypotonia0.0005784Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cranial nerves0.004185Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal muscle physiology0.00004883Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal gland physiology0.05253InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0Least InformativeDirect
Worm Phenotype (WP)general pace of development variant0Least InformativeDirect
Worm Phenotype (WP)retarded heterochronic variations0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval growth variant0Least InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)behavior defective0.0004961Moderately InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)cell0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)late embryo0Moderately InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)portion of tissue0.1195Moderately InformativeInherited
Zebrafish Anatomy (ZA)cell0.4543Moderately InformativeInherited
Zebrafish Anatomy (ZA)muscle0.01842InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1InformativeInherited
Zebrafish Anatomy (ZA)skeletal muscle cell0.0003072Highly InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0Least InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Glycosyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Hexosyltransferases0InformativeDirect

Document: EC annotation of SCOP domains

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)nervous system0Least InformativeDirect
Drugbank ATC_code (DB)psychostimulants, agents used for adhd and nootropics0Moderately InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0.00000000000001492Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Biological processCalcium transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentSarcoplasmic reticulum0Highly InformativeDirect
DomainRepeat0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Post-translational modificationTransferase0.0005515Least InformativeDirect
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationGlycosyltransferase0InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationCalcium channel0Highly InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0.0001565Least InformativeDirect
Post-translational modificationS-nitrosylation0.000000942InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein glycosylation0InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR003608 SSF82109 Protein matches
Abstract This is a domain found in ryanodine, inositol trisphosphate receptor and protein O-mannosyltransferase. Inositol 1,4,5-trisphosphate (InsP3) is an intracellular second messenger that transduces growth factor and neurotransmitter signals. InsP3 mediates the release of Ca2+ from intracellular stores by binding to specific Ca2+ channel-coupled receptors. Ryanodine receptors are involved in communication between transverse-tubules and the sarcoplamic reticulum of cardiac and skeletal muscle. The proteins function as a Ca2+-release channels following depolarisation of transverse-tubules [PubMed1645727]. The function is modulated by Ca2+, Mg2+, ATP and calmodulin. Deficiency in the ryanodine receptor may be the cause of malignant hyperthermia (MH) and of central core disease of muscle (CCD) [PubMed7829078]. protein O-mannosyltransferases transfer mannose from DOL-P-mannose to ser or thr residues on proteins.

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) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 2 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 MIR domain 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 2 hidden Markov models representing the MIR domain 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) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]