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 (131) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 2,980 2,847 5
Proteins 1,649 1,780 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 3.187e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.0005921 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0007239 Least Informative Direct
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.09842 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.569 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.7951 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.8876 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.1927 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.8311 Least Informative Inherited
Biological Process (BP) localization 0.4709 Least Informative Inherited
Biological Process (BP) regulation of developmental process 1.22e-07 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 3.131e-05 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0001337 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.0002267 Moderately Informative Direct
Biological Process (BP) sulfur compound metabolic process 0.0003931 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0006143 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.1294 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.4668 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.006491 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.001272 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.3363 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.1265 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.8813 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 2.139e-09 Informative Direct
Biological Process (BP) regulation of peptidase activity 2.201e-06 Informative Direct
Biological Process (BP) localization of cell 1.454e-05 Informative Direct
Biological Process (BP) negative regulation of developmental process 1.595e-05 Informative Direct
Biological Process (BP) biological adhesion 4.678e-05 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.0002839 Informative Direct
Biological Process (BP) regulation of locomotion 0.0003495 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.0008925 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.01207 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) positive regulation of cell proliferation 0.01599 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.1424 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.3377 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.06242 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.02127 Informative Inherited
Biological Process (BP) generation of neurons 0.003866 Informative Inherited
Biological Process (BP) central nervous system development 0.01413 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.001853 Informative Inherited
Biological Process (BP) regulation of cell development 0.03663 Informative Inherited
Biological Process (BP) locomotion 0.004303 Informative Inherited
Biological Process (BP) cellular component movement 0.03501 Informative Inherited
Biological Process (BP) regulation of growth 0.001733 Informative Inherited
Biological Process (BP) regulation of cell adhesion 0 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 1.931e-15 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 1.884e-13 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 2.173e-12 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 1.181e-11 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 1.046e-09 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 1.619e-09 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 2.321e-08 Highly Informative Direct
Biological Process (BP) peptidyl-serine modification 2.577e-08 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 2.897e-08 Highly Informative Direct
Biological Process (BP) glycosaminoglycan metabolic process 7.51e-08 Highly Informative Direct
Biological Process (BP) cell proliferation 1.223e-06 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 2.786e-05 Highly Informative Direct
Biological Process (BP) regulation of cell growth 3.767e-05 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0.0001052 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 0.0002691 Highly Informative Direct
Biological Process (BP) cell adhesion 0.0002744 Highly Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.001574 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.001014 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.1492 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.6554 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.8114 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.2131 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 1.906e-10 Moderately Informative Direct
Molecular Function (MF) cation binding 0.1053 Moderately Informative Inherited
Molecular Function (MF) peptidase regulator activity 2.479e-06 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 6.671e-06 Informative Direct
Molecular Function (MF) sulfur compound binding 0.0001003 Informative Direct
Molecular Function (MF) enzyme inhibitor activity 0.0001012 Informative Direct
Molecular Function (MF) enzyme activator activity 0.7324 Informative Inherited
Molecular Function (MF) calcium ion binding 6.719e-08 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase inhibitor activity 8.362e-05 Highly Informative Direct
Molecular Function (MF) phosphatase regulator activity 0.0005653 Highly Informative Direct
Cellular Component (CC) protein complex 0.839 Least Informative Inherited
Cellular Component (CC) membrane 0.07608 Least Informative Inherited
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 7.497e-11 Moderately Informative Direct
Cellular Component (CC) cell projection 0.001574 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) neuron projection 8.494e-06 Informative Direct
Cellular Component (CC) cell surface 5.953e-05 Informative Direct
Cellular Component (CC) extracellular space 0.02795 Informative Inherited
Cellular Component (CC) cell-cell junction 0.00107 Informative Inherited
Cellular Component (CC) lateral plasma membrane 0 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 0 Highly Informative Direct
Cellular Component (CC) neuromuscular junction 1.143e-14 Highly Informative Direct
Cellular Component (CC) axon part 6.642e-12 Highly Informative Direct
Cellular Component (CC) basolateral plasma membrane 4.072e-08 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.06871 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 cancer0.1762Least InformativeInherited
Disease Ontology (DO)nervous system disease0.235Least InformativeInherited
Disease Ontology (DO)sensory system disease0.003523Moderately InformativeInherited
Disease Ontology (DO)endocrine system disease0.04407Moderately InformativeInherited
Disease Ontology (DO)nervous system cancer0.07175Moderately InformativeInherited
Disease Ontology (DO)renal carcinoma0.0001055InformativeDirect
Disease Ontology (DO)thyroid gland disease0.00333InformativeInherited
Disease Ontology (DO)retinal disease0.9071InformativeInherited
Disease Ontology (DO)ocular cancer1InformativeInherited
Disease Ontology (DO)hypothyroidism5.917e-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 adhesion2.063e-06InformativeDirect
Biological processGrowth regulation0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell junction9.24e-06Moderately InformativeDirect
Cellular componentExtracellular matrix7.536e-09InformativeDirect
Cellular componentTight junction1.668e-14Highly InformativeDirect
Cellular componentBasement membrane0.0003679Highly InformativeDirect
DomainSignal0Least InformativeDirect
DomainEGF-like domain0.0001637InformativeDirect
Molecular functionCalcium6.21e-12Moderately InformativeDirect
Molecular functionGrowth factor binding0Highly InformativeDirect
Post-translational modificationDevelopmental protein1.539e-06Moderately InformativeDirect
Post-translational modificationProtease inhibitor7.622e-07InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationGlycoprotein1.788e-15Least InformativeDirect
Post-translational modificationProteoglycan1.883e-11InformativeDirect
Post-translational modificationSulfation1.832e-08InformativeDirect
Post-translational modificationHeparan sulfate4.887e-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 ]