SUPERFAMILY 1.75 HMM library and genome assignments server

ABC transporter transmembrane region superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Membrane and cell surface proteins and peptides [ 56835] (58)
Fold:   ABC transporter transmembrane region [ 90122]
Superfamily:   ABC transporter transmembrane region [ 90123]
Families:   ABC transporter transmembrane region [ 90124] (2)


Superfamily statistics
Genomes (3,113) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 48,211 177,294 4
Proteins 38,318 165,477 4


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) response to stimulus 0 Least Informative Direct
Biological Process (BP) localization 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.4658 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.00953 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.69 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.8715 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.9144 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) developmental process 0.002117 Least Informative Inherited
Biological Process (BP) reproductive process 0 Moderately Informative Direct
Biological Process (BP) multi-organism process 0 Moderately Informative Direct
Biological Process (BP) response to endogenous stimulus 0.00000000000003082 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.0000000000002552 Moderately Informative Direct
Biological Process (BP) ion transport 0.0000001179 Moderately Informative Direct
Biological Process (BP) single-organism catabolic process 0.0000005568 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00000591 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.00002699 Moderately Informative Direct
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.00009954 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 0.0001 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.0001456 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.004741 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.6178 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.302 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.0186 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.8106 Moderately Informative Inherited
Biological Process (BP) immune system process 0.1976 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.2944 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.00488 Moderately Informative Inherited
Biological Process (BP) cellular localization 1 Moderately Informative Inherited
Biological Process (BP) oxidation-reduction process 0.303 Moderately Informative Inherited
Biological Process (BP) lipid metabolic process 0.2637 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.8585 Moderately Informative Inherited
Biological Process (BP) monocarboxylic acid metabolic process 0.2164 Moderately Informative Inherited
Biological Process (BP) cellular process involved in reproduction in multicellular organism 0 Informative Direct
Biological Process (BP) response to organonitrogen compound 0 Informative Direct
Biological Process (BP) single organism reproductive process 0 Informative Direct
Biological Process (BP) response to organic cyclic compound 0 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 0.00000000000001071 Informative Direct
Biological Process (BP) anion transport 0.0000000000000325 Informative Direct
Biological Process (BP) lipid localization 0.0000000000001592 Informative Direct
Biological Process (BP) organophosphate catabolic process 0.000000000002172 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 0.000000000003926 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 0.00000000002328 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0.00000000003981 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0.0000000001427 Informative Direct
Biological Process (BP) cellular response to nitrogen compound 0.0000000001506 Informative Direct
Biological Process (BP) nucleobase-containing compound catabolic process 0.000000003764 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.000000006091 Informative Direct
Biological Process (BP) organonitrogen compound catabolic process 0.00000001845 Informative Direct
Biological Process (BP) reproductive structure development 0.000002047 Informative Direct
Biological Process (BP) response to nutrient levels 0.000006687 Informative Direct
Biological Process (BP) regulation of immune effector process 0.00002141 Informative Direct
Biological Process (BP) cellular response to oxygen-containing compound 0.00003007 Informative Direct
Biological Process (BP) organic acid transport 0.00005557 Informative Direct
Biological Process (BP) ion transmembrane transport 0.0004012 Informative Direct
Biological Process (BP) response to inorganic substance 0.2532 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.08263 Informative Inherited
Biological Process (BP) nitrogen compound transport 0.04689 Informative Inherited
Biological Process (BP) fatty acid metabolic process 0.03645 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 0.1024 Informative Inherited
Biological Process (BP) response to acid chemical 0.06364 Informative Inherited
Biological Process (BP) cation homeostasis 0.04023 Informative Inherited
Biological Process (BP) response to light stimulus 0.1122 Informative Inherited
Biological Process (BP) carboxylic acid catabolic process 0.08176 Informative Inherited
Biological Process (BP) sexual reproduction 0.005883 Informative Inherited
Biological Process (BP) single-organism intracellular transport 1 Informative Inherited
Biological Process (BP) metal ion transport 0.07092 Informative Inherited
Biological Process (BP) monovalent inorganic cation transport 0.4666 Informative Inherited
Biological Process (BP) lipid catabolic process 0.03309 Informative Inherited
Biological Process (BP) regulation of immune response 0.03439 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.02787 Informative Inherited
Biological Process (BP) regulation of membrane potential 0 Highly Informative Direct
Biological Process (BP) germ cell development 0 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 0 Highly Informative Direct
Biological Process (BP) anion transmembrane transport 0 Highly Informative Direct
Biological Process (BP) monovalent inorganic cation homeostasis 0 Highly Informative Direct
Biological Process (BP) spermatogenesis 0 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 0 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate catabolic process 0.00000000000002089 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate catabolic process 0.00000000000002753 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 0.00000000000006471 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 0.000000000000093 Highly Informative Direct
Biological Process (BP) antigen processing and presentation 0.00000000003011 Highly Informative Direct
Biological Process (BP) response to drug 0.0000000000663 Highly Informative Direct
Biological Process (BP) amide transport 0.0000000007464 Highly Informative Direct
Biological Process (BP) regulation of adaptive immune response 0.00000002837 Highly Informative Direct
Biological Process (BP) response to UV 0.00000002977 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0.00002619 Highly Informative Direct
Biological Process (BP) inorganic anion transport 0.00004102 Highly Informative Direct
Biological Process (BP) response to cold 0.00005504 Highly Informative Direct
Biological Process (BP) fatty acid catabolic process 0.0002665 Highly Informative Direct
Biological Process (BP) response to cadmium ion 0.1135 Highly Informative Inherited
Biological Process (BP) amino acid transport 0.7839 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.03294 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.006409 Highly Informative Inherited
Biological Process (BP) lipid modification 0.00141 Highly Informative Inherited
Biological Process (BP) gene silencing 0.01192 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.01838 Highly Informative Inherited
Biological Process (BP) monocarboxylic acid transport 0.004054 Highly Informative Inherited
Biological Process (BP) positive regulation of lymphocyte mediated immunity 0.03169 Highly Informative Inherited
Biological Process (BP) positive regulation of leukocyte mediated cytotoxicity 0.002122 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transporter activity 0 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.000000001105 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.000000004332 Moderately Informative Direct
Molecular Function (MF) anion binding 0.0000007972 Moderately Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) anion transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0 Informative Direct
Molecular Function (MF) active transmembrane transporter activity 0.000000000000001593 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 0.00000000000001434 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.000000000006052 Informative Direct
Molecular Function (MF) nucleotide binding 0.00000000001442 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0.000001764 Informative Direct
Molecular Function (MF) receptor binding 0.007284 Informative Inherited
Molecular Function (MF) molecular transducer activity 1 Informative Inherited
Molecular Function (MF) receptor activity 1 Informative Inherited
Molecular Function (MF) monovalent inorganic cation transmembrane transporter activity 0.4688 Informative Inherited
Molecular Function (MF) ATP binding 0 Highly Informative Direct
Molecular Function (MF) channel regulator activity 0 Highly Informative Direct
Molecular Function (MF) inorganic anion transmembrane transporter activity 0.000005825 Highly Informative Direct
Molecular Function (MF) transmembrane signaling receptor activity 0.813 Highly Informative Inherited
Molecular Function (MF) cation channel activity 1 Highly Informative Inherited
Cellular Component (CC) cytoplasmic part 0 Least Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0006277 Least Informative Direct
Cellular Component (CC) protein complex 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.01146 Least Informative Inherited
Cellular Component (CC) plasma membrane part 0.000000009868 Moderately Informative Direct
Cellular Component (CC) intrinsic component of membrane 0.00000001507 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0.001986 Moderately Informative Inherited
Cellular Component (CC) organelle envelope 0.002556 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 0.01737 Moderately Informative Inherited
Cellular Component (CC) endosome 0 Informative Direct
Cellular Component (CC) vacuolar part 0.00000000000000158 Informative Direct
Cellular Component (CC) microbody 0.00000000000689 Informative Direct
Cellular Component (CC) transporter complex 0.0000000001859 Informative Direct
Cellular Component (CC) integral component of membrane 0.0000000003108 Informative Direct
Cellular Component (CC) cell junction 0.0002229 Informative Direct
Cellular Component (CC) lytic vacuole 0.8959 Informative Inherited
Cellular Component (CC) ATP-binding cassette (ABC) transporter complex 0.0000000000005613 Highly Informative Direct
Cellular Component (CC) integral component of organelle membrane 0.00000002083 Highly Informative Direct
Cellular Component (CC) symplast 0.00002029 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)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)immune system disease0.005943Least InformativeInherited
Disease Ontology (DO)organ system cancer0.03832Least InformativeInherited
Disease Ontology (DO)nervous system disease0.1613Least InformativeInherited
Disease Ontology (DO)genetic disease0.001548Moderately InformativeInherited
Disease Ontology (DO)bacterial infectious disease0.01018Moderately InformativeInherited
Disease Ontology (DO)hematologic cancer0.02475Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.4335Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.00001957InformativeDirect
Disease Ontology (DO)myeloid leukemia0.00005141InformativeDirect
Disease Ontology (DO)primary bacterial infectious disease0.005809InformativeInherited
Disease Ontology (DO)autoimmune disease of urogenital tract0.0266InformativeInherited
Disease Ontology (DO)liver disease0.8874InformativeInherited
Disease Ontology (DO)bronchiectasis0.000002313Highly InformativeDirect
Disease Ontology (DO)leukodystrophy0.000137Highly InformativeDirect
Disease Ontology (DO)intrahepatic cholestasis0.0004911Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the abdomen0.1223Least InformativeInherited
Phenotypic Abnormality (PA)Generalized abnormality of skin0.6374Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0.708Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the biliary system0.002372InformativeInherited
Phenotypic Abnormality (PA)Dermatological manifestations of systemic disorders0.01066InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.06146InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the tracheobronchial system0.02581Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal homeostasis0.8069Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.8203Least InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.006895Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.06516Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.09361Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hepatobiliary system physiology0.1239InformativeInherited
Mammalian Phenotype (MP)abnormal xenobiotic pharmacokinetics0.00009685Highly InformativeDirect

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 variant0.02182Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.691Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.408Moderately InformativeInherited
Worm Phenotype (WP)metal response variant0.0000003133InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.001104InformativeInherited
Worm Phenotype (WP)gut granule biogenesis reduced0.0000000149Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.00002428Highly InformativeDirect

Document: WP 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)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0.9025Least InformativeInherited
Plant ANatomical entity (PAN)portion of ground tissue0.0002655InformativeDirect
Plant ANatomical entity (PAN)vascular system0.1629InformativeInherited
Plant ANatomical entity (PAN)vascular bundle0.0004196Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage0.0008931InformativeDirect

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

DrugBank ATC (DB)

(show details)
DB termFDR (all)SDDB levelAnnotation (direct or inherited)
Drugbank ATC_code (DB)alimentary tract and metabolism0.1431Least InformativeInherited
Drugbank ATC_code (DB)drugs used in diabetes0.000002515Moderately InformativeDirect
Drugbank ATC_code (DB)glibenclamide0.000000003007InformativeDirect

Document: DB annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport1Moderately InformativeInherited
Biological processLipid transport0InformativeDirect
Biological processAntibiotic resistance0.0001405InformativeDirect
Biological processCytolysis0.0007469InformativeDirect
Biological processAdaptive immunity0.00000001822Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCell membrane0.000000891Moderately InformativeDirect
Cellular componentMitochondrion0.0007638Moderately InformativeDirect
Cellular componentMitochondrion inner membrane0.0000000001192InformativeDirect
Cellular componentPeroxisome0.0000000411InformativeDirect
Cellular componentVacuole0.00000008173InformativeDirect
Cellular componentCell inner membrane0.000002118InformativeDirect
DiseaseDisease mutation0.00002993Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Molecular functionIron1Moderately InformativeInherited
Molecular functionIron transport0Highly InformativeDirect
Molecular functionChloride0Highly InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtease1Moderately InformativeInherited
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationThiol protease0.0000000006561InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationPhosphoprotein0.0004258Least InformativeDirect
Post-translational modificationPalmitate0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationUbl conjugation0.0000000000001098Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details) Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR011527 SSF90123 Protein matches
Abstract

ABC transporters minimally contain two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). In certain bacterial transporters, these regions are found on different polypeptides. The function of the integral inner-membrane protein is to translocate the substrate across the membrane, as well as in substrate recognition [PubMed9873074, PubMed10529352].


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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 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 ABC transporter transmembrane region 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 ABC transporter transmembrane region 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-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · DrugBank ATC (DB) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]