SUPERFAMILY 1.75 HMM library and genome assignments server


Thyroglobulin type-1 domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Thyroglobulin type-1 domain [ 57609]
Superfamily:   Thyroglobulin type-1 domain [ 57610]
Families:   Thyroglobulin type-1 domain [ 57611] (4)


Superfamily statistics
Genomes (143) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,259 3,501 5
Proteins 1,815 2,185 5


Functional annotation
General category Processes_IC
Detailed category Proteases

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details) 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) developmental process 4.128e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.0005601 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0009376 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1056 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.5853 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.8045 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.9245 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.2027 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.8393 Least Informative Inherited
Biological Process (BP) localization 0.4941 Least Informative Inherited
Biological Process (BP) regulation of developmental process 1.882e-07 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 4.014e-05 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.000205 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.0004226 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0009174 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0009479 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.1551 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.5195 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01004 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001581 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.3368 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.1325 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 2.221e-09 Informative Direct
Biological Process (BP) regulation of peptidase activity 2.139e-06 Informative Direct
Biological Process (BP) negative regulation of developmental process 1.76e-05 Informative Direct
Biological Process (BP) localization of cell 1.765e-05 Informative Direct
Biological Process (BP) biological adhesion 5.489e-05 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.0001883 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.0002761 Informative Direct
Biological Process (BP) regulation of locomotion 0.0003408 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0006737 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.01592 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.1615 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.3536 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.06194 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.01715 Informative Inherited
Biological Process (BP) generation of neurons 0.004518 Informative Inherited
Biological Process (BP) central nervous system development 0.04735 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.00195 Informative Inherited
Biological Process (BP) regulation of cell development 0.03977 Informative Inherited
Biological Process (BP) regulation of cell activation 0.001377 Informative Inherited
Biological Process (BP) locomotion 0.004834 Informative Inherited
Biological Process (BP) cellular component movement 0.03629 Informative Inherited
Biological Process (BP) regulation of growth 0.001787 Informative Inherited
Biological Process (BP) regulation of cell adhesion 0 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 1.938e-15 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 1.736e-13 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 2.947e-12 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 2.807e-11 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 1.817e-09 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 2.297e-09 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 1.882e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.226e-08 Highly Informative Direct
Biological Process (BP) peptidyl-serine modification 4.264e-08 Highly Informative Direct
Biological Process (BP) glycosaminoglycan metabolic process 9.001e-08 Highly Informative Direct
Biological Process (BP) regulation of striated muscle cell differentiation 1.274e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 2.418e-05 Highly Informative Direct
Biological Process (BP) regulation of striated muscle tissue development 4.812e-05 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0.0001133 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 0.0002062 Highly Informative Direct
Biological Process (BP) cell adhesion 0.000346 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.0009468 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.001446 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.1423 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.03965 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.783 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.2052 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 2.67e-10 Moderately Informative Direct
Molecular Function (MF) cation binding 0.1133 Moderately Informative Inherited
Molecular Function (MF) peptidase regulator activity 2.526e-06 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 7.434e-06 Informative Direct
Molecular Function (MF) enzyme inhibitor activity 0.0001096 Informative Direct
Molecular Function (MF) sulfur compound binding 0.000122 Informative Direct
Molecular Function (MF) enzyme activator activity 0.7411 Informative Inherited
Molecular Function (MF) calcium ion binding 4.906e-08 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase inhibitor activity 5.987e-05 Highly Informative Direct
Molecular Function (MF) phosphatase regulator activity 0.0005633 Highly Informative Direct
Cellular Component (CC) protein complex 0.855 Least Informative Inherited
Cellular Component (CC) membrane 0.1342 Least Informative Inherited
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane 9.686e-05 Moderately Informative Direct
Cellular Component (CC) vesicle 0.00669 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.002215 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 1.589e-15 Informative Direct
Cellular Component (CC) neuron projection 1.36e-05 Informative Direct
Cellular Component (CC) cell surface 8.113e-05 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.0001062 Informative Direct
Cellular Component (CC) extracellular space 0.00168 Informative Inherited
Cellular Component (CC) cell junction 0.0168 Informative Inherited
Cellular Component (CC) main axon 0 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 0 Highly Informative Direct
Cellular Component (CC) basolateral plasma membrane 7.179e-08 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.03102 Highly Informative Inherited

Document: GO annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.1816Least InformativeInherited
Disease Ontology (DO)endocrine system disease0.0453Moderately InformativeInherited
Disease Ontology (DO)urinary system cancer0.002326InformativeInherited
Disease Ontology (DO)thyroid gland disease0.003337InformativeInherited
Disease Ontology (DO)hypothyroidism5.961e-05Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details) Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)pericellular component development variant3.469e-05Moderately InformativeDirect
Worm Phenotype (WP)basement membrane remodeling variant1.679e-05InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell adhesion2.126e-06InformativeDirect
Biological processGrowth regulation0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell junction9.951e-06Moderately InformativeDirect
Cellular componentExtracellular matrix6.553e-09InformativeDirect
Cellular componentTight junction1.595e-14Highly InformativeDirect
Cellular componentBasement membrane0.0003799Highly InformativeDirect
DomainSignal0Least InformativeDirect
DomainEGF-like domain0.0001613InformativeDirect
Molecular functionCalcium8.067e-12Moderately InformativeDirect
Molecular functionGrowth factor binding0Highly InformativeDirect
Post-translational modificationDevelopmental protein1.497e-06Moderately InformativeDirect
Post-translational modificationProtease inhibitor7.991e-07InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationGlycoprotein1.793e-15Least InformativeDirect
Post-translational modificationProteoglycan1.699e-11InformativeDirect
Post-translational modificationSulfation1.774e-08InformativeDirect
Post-translational modificationHeparan sulfate4.909e-07Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000716 SSF57610 Protein matches
Abstract

Thyroglobulin (Tg) is a large glycoprotein specific to the thyroid gland and is the precursor of the iodinated thyroid hormones thyroxine (T4) and triiodothyronine (T3). The N-terminal section of Tg contains 10 repeats of a domain of about 65 amino acids which is known as the Tg type-1 repeat [PubMed3595599, PubMed8797845]. Such a domain has also been found as a single or repeated sequence in the HLA class II associated invariant chain [PubMed3038530]; human pancreatic carcinoma marker proteins GA733-1 and GA733-2 [PubMed2333300]; nidogen (entactin), a sulphated glycoprotein which is widely distributed in basement membranes and that is tightly associated with laminin; insulin-like growth factor binding proteins (IGFBP) [PubMed1709161]; saxiphilin, a transferrin-like protein from Rana catesbeiana (Bull frog) that binds specifically to the neurotoxin saxitoxin [PubMed8146142]; chum salmon egg cysteine proteinase inhibitor, and equistatin, a thiol-protease inhibitor from Actinia equina (sea anemone) [PubMed9153250]. The existence of Thyr-1 domains in such a wide variety of proteins raises questions about their activity and function, and their interactions with neighbouring domains. The Thyr-1 and related domains belong to MEROPS proteinase inhibitor family I31, clan IX.

Equistatin from A. equina is composed of three Thyr-1 domains; as with other proteins that contains Thyr-1 domains, the thyropins, they bind reversibly and tightly to cysteine proteases (inhibitor family C1). In equistatin inhibition of papain is a function of domain-1. Unusually domain-2 inhibits cathepsin D, an aspartic protease (inhibitor family A1) and has no activity against papain. Domain-3, does not inhibit either papain or cathepsin D, and its function or its target peptidase has yet to be determined [PubMed9153250, PubMed12650938].


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-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · 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 4 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 Thyroglobulin type-1 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 4 hidden Markov models representing the Thyroglobulin type-1 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-quality) · Gene Ontology (high-coverage) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]