SUPERFAMILY 1.75 HMM library and genome assignments server

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ARM repeat superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   alpha-alpha superhelix [ 48370] (24)
Superfamily:   ARM repeat [ 48371] (23)
Families:   Armadillo repeat [ 48372] (6)
  Clathrin adaptor core protein [ 74771] (2)
  HEAT repeat [ 48385] (2)
  MIF4G domain-like [ 100908] (5)
  PHAT domain [ 89129]
  Mo25 protein [ 101407]
  Leukotriene A4 hydrolase C-terminal domain [ 63608]
  Clathrin heavy chain proximal leg segment [ 48390]
  Clathrin heavy-chain linker domain [ 48393]
  Leucine-rich repeat variant [ 48396]
  Phoshoinositide 3-kinase (PI3K) helical domain [ 48399]
  Pumilio repeat [ 63611]
  Regulatory subunit H of the V-type ATPase [ 63614]
  PBS lyase HEAT-like repeat [ 101410] (2)
  BC3264-like [ 109965] (2)
  Eukaryotic translation initiation factor 3 subunit 12, eIF3k, N-terminal domain [ 109968]
  Exportin HEAT-like repeat [ 117002]
  B56-like [ 140819]
  HspBP1 domain [ 140822]
  GUN4-associated domain [ 140825] (2)
  Diap1 N-terninal region-like [ 140830]
  Plakophilin 1 helical region [ 140833]
  RPA1889-like [ 158764]


Superfamily statistics
Genomes (2,503) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 147,501 479,904 107
Proteins 123,570 406,390 92


Functional annotation
General category General
Detailed category General

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0.01346Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.05767Least InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Omega peptidases0.0000001704Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep0.00001023Moderately InformativeDirect
Enzyme Commission (EC)Acting on ether bonds0InformativeDirect
Enzyme Commission (EC)Miscellaneous (requires further characterization)0InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Leukotriene-A(4) hydrolase0Highly InformativeDirect
Enzyme Commission (EC)1-phosphatidylinositol 4-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4,5-bisphosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4-phosphate 3-kinase0.000000000000004166Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)gastrointestinal system disease0.5135Moderately InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.000413Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the head0.0006398Least InformativeDirect
Phenotypic Abnormality (PA)Abnormal ocular adnexa morphology0.0005834Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.6682Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal cerebellum morphology0.00002593InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the glial cells0.0008198InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the voice0.3512InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.006974Least InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.001415Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.06394Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.2128Moderately InformativeInherited
Mammalian Phenotype (MP)increased urinary system tumor incidence0.001516Highly InformativeInherited
Mammalian Phenotype (MP)increased adenoma incidence0.128Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)cell development variant0.0000000000001642Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000000000003181Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.000000001658Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0000002876Least InformativeDirect
Worm Phenotype (WP)endocytic transport variant0.000000000000003586Moderately InformativeDirect
Worm Phenotype (WP)early embryonic lethal0.0000000000002001Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000000001134Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.01179Moderately InformativeInherited
Worm Phenotype (WP)cell organization biogenesis variant0.02248Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.02751Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.0342Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.1362Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.5459Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.7901Moderately InformativeInherited
Worm Phenotype (WP)brood size variant0.0000000001437InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000001179InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.000001243InformativeDirect
Worm Phenotype (WP)sick0.00001519InformativeDirect
Worm Phenotype (WP)vesicle organization variant0.00001794InformativeDirect
Worm Phenotype (WP)pigmentation variant0.00009454InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.01652InformativeInherited
Worm Phenotype (WP)male mating variant0.03485InformativeInherited
Worm Phenotype (WP)sensillum morphology variant0.1411InformativeInherited
Worm Phenotype (WP)cytoskeleton organization biogenesis variant0.2966InformativeInherited
Worm Phenotype (WP)gastrulation variant0.00001089Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.00001734Highly InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.00006844Highly InformativeDirect
Worm Phenotype (WP)seam cell morphology variant0.00007073Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0002022Highly InformativeDirect
Worm Phenotype (WP)hatching variant0.000222Highly InformativeDirect
Worm Phenotype (WP)cell polarity variant0.0003268Highly InformativeDirect
Worm Phenotype (WP)dye filling defect0.0003573Highly InformativeDirect
Worm Phenotype (WP)epithelial system physiology variant0.0008012Highly InformativeDirect
Worm Phenotype (WP)nuclear number variant0.0008031Highly InformativeDirect
Worm Phenotype (WP)cell fusion variant0.1034Highly InformativeInherited
Worm Phenotype (WP)sex determination variant0.1751Highly InformativeInherited
Worm Phenotype (WP)P granule abnormal0.442Highly InformativeInherited
Worm Phenotype (WP)postembryonic cell lineage variant0.4785Highly InformativeInherited
Worm Phenotype (WP)germline proliferation variant0.8295Highly 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 growth0.4541Least InformativeInherited
Yeast Phenotype (YP)intracellular transport0.001582InformativeInherited
Yeast Phenotype (YP)protein transport0.0004348Highly InformativeDirect
Yeast Phenotype (YP)protein/peptide distribution0.0006663Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.02597Least InformativeInherited
Fly Phenotype (FP)lethal0.3643Moderately InformativeInherited

Document: FP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)urogenital system0.000000004775Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.00002299Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0.002867Least InformativeInherited
Xenopus ANatomical entity (XAN)nervous system0.003362Least InformativeInherited
Xenopus ANatomical entity (XAN)testis0.000000000000001546Moderately InformativeDirect
Xenopus ANatomical entity (XAN)germ cell0.008339Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0.0004128InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)guard cell0.00006124Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0.0003798Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.03804Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.09409Least InformativeInherited
Plant ANatomical entity (PAN)pollen0.0002784Moderately InformativeDirect
Plant ANatomical entity (PAN)bud0.000122Highly InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0.0005929Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0.0009097Least InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage0.0002554Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0.000000000006522Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases0.4393Least InformativeInherited
Enzyme Commission (EC)Hydrolases0.7723Least InformativeInherited
Enzyme Commission (EC)Aminoacyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.0000353Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.01301Moderately InformativeInherited
Enzyme Commission (EC)Glycosylases0.7277Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0000000001055InformativeDirect
Enzyme Commission (EC)Omega peptidases0.000002692InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.0000317InformativeDirect
Enzyme Commission (EC)Hydrolyzing N-glycosyl compounds0.004722InformativeInherited
Enzyme Commission (EC)Acting on CH or CH(2) groups0.006195InformativeInherited
Enzyme Commission (EC)Miscellaneous0Highly InformativeDirect
Enzyme Commission (EC)Acting on ether bonds0Highly InformativeDirect
Enzyme Commission (EC)ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase0.0000000000001691Highly InformativeDirect
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0.0000000136Highly InformativeDirect
Enzyme Commission (EC)Aminopeptidases0.007381Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processVirulence0.000000000003948Moderately InformativeDirect
Cellular componentPhycobilisome0.000000000002097Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · 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 75 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 ARM repeat 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 75 hidden Markov models representing the ARM repeat 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 · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]