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Transferrin receptor-like dimerisation domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   N-cbl like [ 47667] (5)
Superfamily:   Transferrin receptor-like dimerisation domain [ 47672]
Families:   Transferrin receptor-like dimerisation domain [ 47673] (2)


Superfamily statistics
Genomes (427) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 1,437 3,412 5
Proteins 1,408 3,364 5


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) macromolecule metabolic process 0.00000000006998 Least Informative Direct
Biological Process (BP) biological regulation 0.005741 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 0.3586 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.6012 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.007931 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.00737 Least Informative Inherited
Biological Process (BP) macromolecule localization 0.000001086 Moderately Informative Direct
Biological Process (BP) nitrogen compound transport 0.000001645 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.00001124 Moderately Informative Direct
Biological Process (BP) organic substance transport 0.00003418 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.00003729 Moderately Informative Direct
Biological Process (BP) ion transport 0.0002313 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 0.000235 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.002457 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.001132 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.2254 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.002056 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.01453 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.00197 Moderately Informative Inherited
Biological Process (BP) protein transport 0.000000000007074 Informative Direct
Biological Process (BP) metal ion transport 0.00000000001658 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.00000000006981 Informative Direct
Biological Process (BP) cation homeostasis 0.00000000007983 Informative Direct
Biological Process (BP) inorganic ion homeostasis 0.00000000009592 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.000000000157 Informative Direct
Biological Process (BP) regulation of immune response 0.000000002496 Informative Direct
Biological Process (BP) positive regulation of immune system process 0.000000005051 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0000003506 Informative Direct
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 0.0000008578 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.000009714 Informative Direct
Biological Process (BP) positive regulation of multicellular organismal process 0.0000481 Informative Direct
Biological Process (BP) positive regulation of immune effector process 0 Highly Informative Direct
Biological Process (BP) regulation of production of molecular mediator of immune response 0 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0 Highly Informative Direct
Biological Process (BP) regulation of lymphocyte proliferation 0 Highly Informative Direct
Biological Process (BP) positive regulation of adaptive immune response based on somatic recombination of immune receptors b 0 Highly Informative Direct
Biological Process (BP) regulation of leukocyte mediated immunity 0 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0 Highly Informative Direct
Biological Process (BP) transition metal ion transport 0 Highly Informative Direct
Biological Process (BP) positive regulation of lymphocyte activation 0.000000000000005563 Highly Informative Direct
Biological Process (BP) regulation of T cell activation 0.000000000000005563 Highly Informative Direct
Biological Process (BP) positive regulation of cell adhesion 0.000000000001463 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.000000000002537 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.01221 Least Informative Inherited
Molecular Function (MF) transporter activity 0.00002272 Moderately Informative Direct
Molecular Function (MF) P-P-bond-hydrolysis-driven transmembrane transporter activity 0.000000000005919 Informative Direct
Molecular Function (MF) metal ion transmembrane transporter activity 0.000000000151 Informative Direct
Molecular Function (MF) molecular transducer activity 0.005725 Informative Inherited
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.4574 Informative Inherited
Molecular Function (MF) macromolecule transmembrane transporter activity 0 Highly Informative Direct
Molecular Function (MF) protein transporter activity 0 Highly Informative Direct
Molecular Function (MF) amide transmembrane transporter activity 0 Highly Informative Direct
Molecular Function (MF) exopeptidase activity 0.0000000000004 Highly Informative Direct
Cellular Component (CC) membrane 0.0009616 Least Informative Direct
Cellular Component (CC) plasma membrane 0.0007365 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.03513 Moderately Informative Inherited
Cellular Component (CC) vesicle 0.00315 Moderately Informative Inherited
Cellular Component (CC) intrinsic component of membrane 0.01921 Moderately Informative Inherited
Cellular Component (CC) cell surface 0.0002531 Informative Direct
Cellular Component (CC) extracellular organelle 0.0003521 Informative Direct
Cellular Component (CC) extracellular space 0.01966 Informative Inherited
Cellular Component (CC) extracellular exosome 0.0002939 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 peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Metallocarboxypeptidases0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processEndocytosis0InformativeDirect
Cellular componentMembrane0Least InformativeDirect
DomainTransmembrane6.227e-16Least InformativeDirect
DomainSignal-anchor0InformativeDirect
Molecular functionZinc0.0000000000004472Least InformativeDirect
Molecular functionMetal-binding0.00007415Least InformativeDirect
Molecular functionCalcium0.00005018Moderately InformativeDirect
Post-translational modificationHydrolase0.00000004649Least InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationReceptor0.000000000000002407Moderately InformativeDirect
Post-translational modificationMetalloprotease0InformativeDirect
Post-translational modificationCarboxypeptidase8.797e-16Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationPalmitate0.00000000000001676Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR007365 SSF47672 Protein matches
Abstract

This entry represents the dimerisation domain found in the transferrin receptor, as well as in a number of other proteins including glutamate carboxypeptidase II and N-acetylated-alpha-linked acidic dipeptidase like protein.

The transferrin receptor (TfR) assists iron uptake into vertebrate cells through a cycle of endo- and exocytosis of the iron transport protein transferrin (Tf). TfR binds iron-loaded (diferric) Tf at the cell surface and carries it to the endosome, where the iron dissociates from Tf. The apo-Tf remains bound to TfR until it reaches the cell surface, where apo-Tf is replaced by diferric Tf from the serum to begin the cycle again. Human TfR is a homodimeric type II transmembrane protein. The crystal structure of a TfR monomer reveals a 3-domain structure: a protease-like domain that closely resembles carboxy- and amino-peptidases; an apical domain consisting of a beta-sandwich; and a helical dimerisation domain. The dimerisation domain consists of a 4-helical bundle that makes contact with each of the three domains in the dimer partner [PubMed10531064].


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) · 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 2 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 Transferrin receptor-like dimerisation domain 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 2 hidden Markov models representing the Transferrin receptor-like dimerisation domain 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) · UniProtKB KeyWords (KW) · Internal database links ]