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 disease0.529Moderately InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Somatic mutation0.0005354InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.001642Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5615Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.5745Least InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.4229Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.5766Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.7264Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the glial cells0.0001457InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the lower urinary tract0.1648InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the metencephalon1InformativeInherited
Phenotypic Abnormality (PA)Delayed speech and language development0.0002636Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the bladder0.2138Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the voice0.2808Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)mortality/aging0.006927Least InformativeInherited
Mammalian Phenotype (MP)prenatal lethality0.001444Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.06364Moderately InformativeInherited
Mammalian Phenotype (MP)neoplasm0.2135Moderately InformativeInherited
Mammalian Phenotype (MP)increased urinary system tumor incidence0.001522Highly InformativeInherited
Mammalian Phenotype (MP)increased adenoma incidence0.1279Highly 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 variant0.0000000000001315Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.000000000001245Least InformativeDirect
Worm Phenotype (WP)organ system morphology variant0.0000000009135Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.000001318Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.1205Least InformativeInherited
Worm Phenotype (WP)early embryonic lethal0.0000000000003749Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.00000000671Moderately InformativeDirect
Worm Phenotype (WP)cell division variant0.004883Moderately InformativeInherited
Worm Phenotype (WP)germ cell morphology variant0.01759Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.03067Moderately InformativeInherited
Worm Phenotype (WP)reproductive system morphology variant0.05169Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.09103Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.1746Moderately InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.3458Moderately InformativeInherited
Worm Phenotype (WP)brood size variant0.0000000002508InformativeDirect
Worm Phenotype (WP)embryonic cell organization biogenesis variant0.00000001409InformativeDirect
Worm Phenotype (WP)cytokinesis variant emb0.000001275InformativeDirect
Worm Phenotype (WP)sick0.00001699InformativeDirect
Worm Phenotype (WP)pigmentation variant0.00005034InformativeDirect
Worm Phenotype (WP)oocyte physiology variant0.0001336InformativeDirect
Worm Phenotype (WP)germ cell cytoplasmic morphology variant0.1476InformativeInherited
Worm Phenotype (WP)embryonic arrest0.00005348Highly InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.00006438Highly InformativeDirect
Worm Phenotype (WP)seam cell morphology variant0.00008202Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0003596Highly InformativeDirect
Worm Phenotype (WP)sex determination variant0.0004144Highly InformativeDirect
Worm Phenotype (WP)multiple nuclei0.0007013Highly InformativeDirect
Worm Phenotype (WP)hatching variant0.001179Highly InformativeInherited
Worm Phenotype (WP)cell fusion variant0.09324Highly InformativeInherited
Worm Phenotype (WP)lineage variant0.3709Highly InformativeInherited
Worm Phenotype (WP)P granule defective0.3789Highly InformativeInherited
Worm Phenotype (WP)germline proliferation variant0.947Highly 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 mortality0.03195Least InformativeInherited
Fly Phenotype (FP)lethal - all die before end of P-stage0.1487Moderately 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)genital system0.00000000003666Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.00005771Least InformativeDirect
Xenopus ANatomical entity (XAN)cavitated compound organ0.002848Least InformativeInherited
Xenopus ANatomical entity (XAN)nervous system0.003315Least InformativeInherited
Xenopus ANatomical entity (XAN)testis0.000000000000005138Moderately InformativeDirect
Xenopus ANatomical entity (XAN)germ line cell0.2674Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0.0009335InformativeDirect

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 groups0.000000000005339Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases0.5118Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor0.00003433Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.01076Moderately 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 kinase0.00000000009243InformativeDirect
Enzyme Commission (EC)Omega peptidases0.000002348InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.00003164InformativeDirect
Enzyme Commission (EC)Acting on CH or CH(2) groups0.005806InformativeInherited
Enzyme Commission (EC)Miscellaneous0Highly InformativeDirect
Enzyme Commission (EC)Acting on ether bonds0Highly InformativeDirect
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0.00000001343Highly InformativeDirect
Enzyme Commission (EC)Aminopeptidases0.007543Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Cellular componentPhycobilisome0.0000000004007Moderately 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 ]