SUPERFAMILY 1.75 HMM library and genome assignments server


Calcium ATPase, transmembrane domain M superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   Calcium ATPase, transmembrane domain M [ 81666]
Superfamily:   Calcium ATPase, transmembrane domain M [ 81665]
Families:   Calcium ATPase, transmembrane domain M [ 81664]


Superfamily statistics
Genomes (3,044) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 27,587 95,033 2
Proteins 27,347 94,861 2


Functional annotation
General category coiled coil
Detailed category This is a complex coiled arrangement. The details of which will appear on this page shortly (some coiled coil details are being checked before they are included on the site). If you want to see examples of the states please click here here. If you require further details urgently please contact Owen Rackham

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)multicellular organismal process0.02660.5471Least InformativeInherited
Biological Process (BP)developmental process0.059781Least InformativeInherited
Biological Process (BP)response to stimulus0.11030.1084Least InformativeInherited
Biological Process (BP)regulation of multicellular organismal process5.703e-055.721e-05Moderately InformativeDirect
Biological Process (BP)system process5.704e-055.727e-06Moderately InformativeDirect
Biological Process (BP)organ development0.0070480.4918Moderately InformativeInherited
Biological Process (BP)regulation of system process0.056890InformativeInherited
Biological Process (BP)regulation of muscle contraction2.106e-080Highly InformativeDirect
Biological Process (BP)neuromuscular process0.00014661.964e-05Highly InformativeDirect
Cellular Component (CC)cytoplasmic part0.32050Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.0023952.903e-06Least InformativeInherited
Cellular Component (CC)endoplasmic reticulum0.00029760Moderately InformativeDirect
Cellular Component (CC)sarcoplasmic reticulum3.185e-051.354e-14Highly 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) single-organism cellular process 4.553e-12 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.9329 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.6852 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1084 Least Informative Inherited
Biological Process (BP) protein metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.5471 Least Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 5.721e-05 Moderately Informative Direct
Biological Process (BP) system process 5.727e-06 Moderately Informative Direct
Biological Process (BP) ion transport 0 Moderately Informative Direct
Biological Process (BP) homeostatic process 0 Moderately Informative Direct
Biological Process (BP) regulation of localization 8.158e-06 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 1.115e-05 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 1.338e-05 Moderately Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 2.666e-05 Moderately Informative Direct
Biological Process (BP) organic cyclic compound catabolic process 8.301e-05 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.0006693 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.04115 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.1499 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.4918 Moderately Informative Inherited
Biological Process (BP) tissue development 0.58 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.997 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.4999 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.9764 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 0.2101 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.09672 Moderately Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1.104e-07 Informative Direct
Biological Process (BP) regulation of system process 0 Informative Direct
Biological Process (BP) transmembrane transport 0 Informative Direct
Biological Process (BP) lipid localization 0 Informative Direct
Biological Process (BP) metal ion transport 2.793e-11 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 6.163e-11 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 1.229e-10 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.242e-10 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 6.463e-10 Informative Direct
Biological Process (BP) regulation of ion transport 3.897e-09 Informative Direct
Biological Process (BP) organophosphate catabolic process 4.095e-09 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 3.076e-08 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 1.01e-07 Informative Direct
Biological Process (BP) blood circulation 1.235e-06 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 2.528e-06 Informative Direct
Biological Process (BP) cellular membrane organization 3.731e-06 Informative Direct
Biological Process (BP) response to inorganic substance 4.615e-05 Informative Direct
Biological Process (BP) regulation of body fluid levels 0.0002715 Informative Direct
Biological Process (BP) cellular cation homeostasis 0.0008631 Informative Direct
Biological Process (BP) generation of neurons 0.3248 Informative Inherited
Biological Process (BP) cell projection organization 1 Informative Inherited
Biological Process (BP) embryonic organ development 0.008807 Informative Inherited
Biological Process (BP) sensory organ development 0.01192 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.5368 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1442 Informative Inherited
Biological Process (BP) anion transport 1 Informative Inherited
Biological Process (BP) single organism reproductive process 1 Informative Inherited
Biological Process (BP) single-organism behavior 0.2056 Informative Inherited
Biological Process (BP) metal ion homeostasis 0.002681 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 1 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) actin filament-based process 1 Informative Inherited
Biological Process (BP) gland development 0.003787 Informative Inherited
Biological Process (BP) central nervous system development 0.0102 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.3727 Informative Inherited
Biological Process (BP) intracellular signal transduction 1 Informative Inherited
Biological Process (BP) biological adhesion 0.5106 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.0273 Informative Inherited
Biological Process (BP) response to other organism 0.4441 Informative Inherited
Biological Process (BP) response to light stimulus 0.008967 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.7532 Informative Inherited
Biological Process (BP) epithelium development 1 Informative Inherited
Biological Process (BP) organ morphogenesis 0.2671 Informative Inherited
Biological Process (BP) synaptic transmission 0.2404 Informative Inherited
Biological Process (BP) regulation of muscle contraction 0 Highly Informative Direct
Biological Process (BP) neuromuscular process 1.964e-05 Highly Informative Direct
Biological Process (BP) ion transmembrane transport 0 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 2.298e-14 Highly Informative Direct
Biological Process (BP) organophosphate ester transport 1.253e-12 Highly Informative Direct
Biological Process (BP) lactation 6.707e-12 Highly Informative Direct
Biological Process (BP) negative regulation of hormone metabolic process 3.814e-09 Highly Informative Direct
Biological Process (BP) locomotory behavior 1.137e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 2.225e-08 Highly Informative Direct
Biological Process (BP) response to drug 1.76e-07 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 3.039e-07 Highly Informative Direct
Biological Process (BP) negative regulation of lipid biosynthetic process 9.17e-07 Highly Informative Direct
Biological Process (BP) adult behavior 2.605e-06 Highly Informative Direct
Biological Process (BP) regulation of steroid biosynthetic process 4.293e-06 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 7.728e-05 Highly Informative Direct
Biological Process (BP) embryonic organ morphogenesis 0.0002763 Highly Informative Direct
Biological Process (BP) response to toxic substance 0.0004009 Highly Informative Direct
Biological Process (BP) ear development 0.0005192 Highly Informative Direct
Biological Process (BP) monovalent inorganic cation transport 1 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.05297 Highly Informative Inherited
Biological Process (BP) epidermal cell differentiation 0.2456 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in neuron differentiation 0.04758 Highly Informative Inherited
Biological Process (BP) cellular calcium ion homeostasis 0.01005 Highly Informative Inherited
Biological Process (BP) maintenance of location 0.09703 Highly Informative Inherited
Biological Process (BP) sensory perception 0.1859 Highly Informative Inherited
Biological Process (BP) calcium ion transport 0.004644 Highly Informative Inherited
Biological Process (BP) cellular transition metal ion homeostasis 0.5962 Highly Informative Inherited
Biological Process (BP) cell adhesion 1 Highly Informative Inherited
Biological Process (BP) learning or memory 0.377 Highly Informative Inherited
Biological Process (BP) transition metal ion transport 0.4262 Highly Informative Inherited
Biological Process (BP) purine ribonucleoside catabolic process 0.1203 Highly Informative Inherited
Biological Process (BP) purine ribonucleotide catabolic process 0.1316 Highly Informative Inherited
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 0.8363 Highly Informative Inherited
Biological Process (BP) retina development in camera-type eye 0.01626 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.4411 Highly Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.7692 Highly Informative Inherited
Biological Process (BP) neurotransmitter transport 1 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.154 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0 Moderately Informative Direct
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) cation binding 1.413e-08 Moderately Informative Direct
Molecular Function (MF) anion binding 0.1694 Moderately Informative Inherited
Molecular Function (MF) purine ribonucleoside binding 0 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) active transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 6.064e-15 Informative Direct
Molecular Function (MF) nucleotide binding 3.603e-14 Informative Direct
Molecular Function (MF) inorganic cation transmembrane transporter activity 4.539e-11 Informative Direct
Molecular Function (MF) transition metal ion binding 1 Informative Inherited
Molecular Function (MF) ATPase activity, coupled to transmembrane movement of ions 0 Highly Informative Direct
Molecular Function (MF) ATP binding 0 Highly Informative Direct
Molecular Function (MF) copper ion binding 4.3e-06 Highly Informative Direct
Molecular Function (MF) calcium ion binding 6.174e-05 Highly Informative Direct
Molecular Function (MF) calcium ion transmembrane transporter activity 7.072e-05 Highly Informative Direct
Molecular Function (MF) transition metal ion transmembrane transporter activity 0.0001648 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.02089 Highly Informative Inherited
Molecular Function (MF) hydrogen ion transmembrane transporter activity 0.3955 Highly Informative Inherited
Molecular Function (MF) lipid transporter activity 0.01893 Highly Informative Inherited
Molecular Function (MF) sodium ion transmembrane transporter activity 0.09035 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 2.903e-06 Least Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.7119 Least Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0 Moderately Informative Direct
Cellular Component (CC) endomembrane system 1.504e-12 Moderately Informative Direct
Cellular Component (CC) organelle membrane 4.687e-06 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.0001735 Moderately Informative Direct
Cellular Component (CC) Golgi apparatus 0 Informative Direct
Cellular Component (CC) vacuolar part 6.406e-07 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.0006997 Informative Direct
Cellular Component (CC) contractile fiber part 0.000751 Informative Direct
Cellular Component (CC) integral to membrane 0.002429 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 0.9845 Informative Inherited
Cellular Component (CC) sarcoplasmic reticulum 1.354e-14 Highly Informative Direct
Cellular Component (CC) trans-Golgi network 9.131e-15 Highly Informative Direct
Cellular Component (CC) sarcomere 4.384e-06 Highly Informative Direct
Cellular Component (CC) sarcolemma 4.679e-05 Highly Informative Direct
Cellular Component (CC) apical plasma membrane 5.044e-05 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.0004767 Highly Informative Direct
Cellular Component (CC) basolateral plasma membrane 0.0007537 Highly Informative Direct
Cellular Component (CC) cell body 0.01474 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0InformativeDirect
Enzyme Commission (EC)Potassium-transporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Calcium-transporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Proton-exporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Phospholipid-translocating ATPase0Highly InformativeDirect
Enzyme Commission (EC)Copper-exporting ATPase0Highly InformativeDirect
Enzyme Commission (EC)Sodium/potassium-exchanging ATPase0Highly InformativeDirect
Enzyme Commission (EC)Cu(+) exporting ATPase1.092e-13Highly InformativeDirect
Enzyme Commission (EC)Cadmium-exporting ATPase7.156e-12Highly InformativeDirect
Enzyme Commission (EC)Hydrogen/potassium-exchanging ATPase4.596e-10Highly InformativeDirect
Enzyme Commission (EC)Zinc-exporting ATPase7.355e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)muscle phenotype0.02557Moderately InformativeInherited
Mammalian Phenotype (MP)impaired muscle contractility0.0005948InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.002257Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.202Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.007528Moderately InformativeInherited
Worm Phenotype (WP)nicotine response variant0.009701InformativeInherited
Worm Phenotype (WP)lipid metabolism variant0.06673InformativeInherited
Worm Phenotype (WP)cell membrane morphology variant6.327e-11Highly InformativeDirect
Worm Phenotype (WP)nicotine hypersensitive3.225e-08Highly InformativeDirect
Worm Phenotype (WP)lipid composition variant1.933e-07Highly InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)sporangium0.0001175Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0.002441Least InformativeInherited
Plant ANatomical entity (PAN)flower0.03196Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure0.04703Least InformativeInherited
Plant ANatomical entity (PAN)whole plant0.06103Least InformativeInherited
Plant ANatomical entity (PAN)portion of ground tissue5.963e-07InformativeDirect
Plant ANatomical entity (PAN)parenchyma cell3.406e-09Highly InformativeDirect
Plant ANatomical entity (PAN)anther0.0005621Highly InformativeDirect
Plant ANatomical entity (PAN)mesophyll1Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.0002813Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Biological processLipid transport2.879e-12InformativeDirect
Biological processCalcium transport0Highly InformativeDirect
Biological processPotassium transport0Highly InformativeDirect
Biological processSodium transport7.274e-11Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentCell membrane3.266e-10Moderately InformativeDirect
Cellular componentEndosome5.124e-05Moderately InformativeDirect
Cellular componentSarcoplasmic reticulum0Highly InformativeDirect
Coding sequence diversityAlternative splicing0.0002295Least InformativeDirect
DiseaseDisease mutation2.055e-08Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionCalmodulin-binding0InformativeDirect
Molecular functionCopper0InformativeDirect
Molecular functionPotassium0InformativeDirect
Molecular functionSodium0InformativeDirect
Molecular functionCadmium0Highly InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationNitration1.529e-05InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · 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 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 Calcium ATPase, transmembrane domain M 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 Calcium ATPase, transmembrane domain M 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]