SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 (3,121) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 48,658 281,128 4
Proteins 38,623 250,358 4


Functional annotation
General category Processes_IC
Detailed category Transport

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 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)organ system cancer0.06742Least InformativeInherited
Disease Ontology (DO)nervous system disease0.1073Least InformativeInherited
Disease Ontology (DO)brain disease0.0004874Moderately InformativeDirect
Disease Ontology (DO)genetic disease0.0008339Moderately InformativeDirect
Disease Ontology (DO)hematologic cancer0.03076Moderately InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.1297Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.1664Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.2885Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.4462Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease0.00001269InformativeDirect
Disease Ontology (DO)myeloid leukemia0.00006755InformativeDirect
Disease Ontology (DO)primary bacterial infectious disease0.00701InformativeInherited
Disease Ontology (DO)liver disease0.8946InformativeInherited
Disease Ontology (DO)bronchiectasis0.000004082Highly InformativeDirect
Disease Ontology (DO)leukodystrophy0.000007795Highly InformativeDirect
Disease Ontology (DO)intrahepatic cholestasis0.0003864Highly InformativeDirect
Disease Ontology (DO)primary biliary cirrhosis0.0007451Highly 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 digestive system0.0997Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.0005636Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.2767Moderately InformativeInherited
Phenotypic Abnormality (PA)Jaundice0.0002684Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.8398Least InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.04044Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gallbladder physiology0.0001654Highly InformativeDirect
Mammalian Phenotype (MP)abnormal liver lobule morphology0.0002439Highly InformativeDirect
Mammalian Phenotype (MP)amyloid beta deposits0.0002631Highly InformativeDirect
Mammalian Phenotype (MP)abnormal xenobiotic pharmacokinetics0.0002682Highly 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 variant0.00006985Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.4494Least InformativeInherited
Worm Phenotype (WP)cell development variant0.9725Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.6149Moderately InformativeInherited
Worm Phenotype (WP)metal response variant0.00000000671InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.001628InformativeInherited
Worm Phenotype (WP)lysosome organization biogenesis variant0.00000007365Highly InformativeDirect
Worm Phenotype (WP)gut granule development variant0.000002146Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.0000726Highly InformativeDirect

Document: WP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA 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)whole plant0.9032Least InformativeInherited
Plant ANatomical entity (PAN)portion of ground tissue0.0002675InformativeDirect
Plant ANatomical entity (PAN)portion of vascular tissue0.03432InformativeInherited
Plant ANatomical entity (PAN)vascular bundle0.0004572Highly InformativeDirect
Plant structure DEvelopment stage (PDE)seedling development stage0.0009111InformativeDirect

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

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 · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 7 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 7 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 · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]