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 (144) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,262 3,501 5
Proteins 1,818 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) regulation of cellular process 0 Least Informative Direct
Biological Process (BP) developmental process 0.00004081 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.0004107 Least Informative Direct
Biological Process (BP) localization 0.5364 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.9577 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.1632 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.8242 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) cellular macromolecule metabolic process 0.8432 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.2159 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 0.1264 Least Informative Inherited
Biological Process (BP) regulation of signal transduction 0.00000000000007887 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.0000001867 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.00008803 Moderately Informative Direct
Biological Process (BP) regulation of multicellular organismal process 0.0005296 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0007114 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.463 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.5488 Moderately Informative Inherited
Biological Process (BP) sulfur compound metabolic process 0.001042 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.4059 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of phosphorus metabolic process 0.1503 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1626 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.002797 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.00108 Moderately Informative Inherited
Biological Process (BP) nervous system development 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.1513 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.04057 Moderately Informative Inherited
Biological Process (BP) negative regulation of protein processing 0.000000000001496 Informative Direct
Biological Process (BP) negative regulation of developmental process 0.000000000001646 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.000000006624 Informative Direct
Biological Process (BP) negative regulation of multicellular organismal process 0.0000001403 Informative Direct
Biological Process (BP) cell proliferation 0.0000002027 Informative Direct
Biological Process (BP) regulation of peptidase activity 0.0000002913 Informative Direct
Biological Process (BP) negative regulation of cellular protein metabolic process 0.0000008124 Informative Direct
Biological Process (BP) negative regulation of catalytic activity 0.000003071 Informative Direct
Biological Process (BP) localization of cell 0.00001843 Informative Direct
Biological Process (BP) biological adhesion 0.00004512 Informative Direct
Biological Process (BP) regulation of cellular component movement 0.000306 Informative Direct
Biological Process (BP) regulation of locomotion 0.0003476 Informative Direct
Biological Process (BP) regulation of cell proliferation 0.0007647 Informative Direct
Biological Process (BP) regulation of cell development 0.01695 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.01919 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.2265 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) locomotion 0.004826 Informative Inherited
Biological Process (BP) cellular component movement 0.01885 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.3735 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.03062 Informative Inherited
Biological Process (BP) central nervous system development 0.05172 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 0.002047 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.02281 Informative Inherited
Biological Process (BP) regulation of cell activation 0.001477 Informative Inherited
Biological Process (BP) generation of neurons 0.004653 Informative Inherited
Biological Process (BP) regulation of growth 0.001456 Informative Inherited
Biological Process (BP) regulation of cell adhesion 0 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.000000000000001913 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.0000000000001652 Highly Informative Direct
Biological Process (BP) negative regulation of cell differentiation 0.000000000001277 Highly Informative Direct
Biological Process (BP) negative regulation of cytoskeleton organization 0.000000000004275 Highly Informative Direct
Biological Process (BP) regulation of mononuclear cell proliferation 0.000000001947 Highly Informative Direct
Biological Process (BP) regulation of actin cytoskeleton organization 0.000000002251 Highly Informative Direct
Biological Process (BP) regulation of cellular carbohydrate metabolic process 0.000000005631 Highly Informative Direct
Biological Process (BP) negative regulation of locomotion 0.00000002023 Highly Informative Direct
Biological Process (BP) negative regulation of cellular component movement 0.00000003438 Highly Informative Direct
Biological Process (BP) peptidyl-serine modification 0.00000004527 Highly Informative Direct
Biological Process (BP) glycosaminoglycan metabolic process 0.00000009186 Highly Informative Direct
Biological Process (BP) cell adhesion 0.000007163 Highly Informative Direct
Biological Process (BP) positive regulation of leukocyte proliferation 0.0001059 Highly Informative Direct
Biological Process (BP) positive regulation of cell activation 0.0001301 Highly Informative Direct
Biological Process (BP) regulation of organ morphogenesis 0.00102 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 0.0391 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.2632 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 0.00000000001063 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.00138 Moderately Informative Inherited
Molecular Function (MF) cation binding 0.1144 Moderately Informative Inherited
Molecular Function (MF) peptidase regulator activity 0.00002436 Informative Direct
Molecular Function (MF) sulfur compound binding 0.0001767 Informative Direct
Molecular Function (MF) enzyme inhibitor activity 0.0009651 Informative Direct
Molecular Function (MF) enzyme activator activity 1 Informative Inherited
Molecular Function (MF) calcium ion binding 0.00000004937 Highly Informative Direct
Molecular Function (MF) cysteine-type endopeptidase inhibitor activity 0.00006063 Highly Informative Direct
Molecular Function (MF) phosphatase regulator activity 0.001678 Highly Informative Inherited
Cellular Component (CC) protein complex 0.8447 Least Informative Inherited
Cellular Component (CC) membrane 0.134 Least Informative Inherited
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) plasma membrane part 0.0000000002966 Moderately Informative Direct
Cellular Component (CC) membrane region 0.0000001244 Moderately Informative Direct
Cellular Component (CC) vesicle 0.007108 Moderately Informative Inherited
Cellular Component (CC) cell projection 0.002681 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) plasma membrane region 0.000000000155 Informative Direct
Cellular Component (CC) synapse 0.000008614 Informative Direct
Cellular Component (CC) neuron projection 0.00001326 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.0001211 Informative Direct
Cellular Component (CC) cell surface 0.0001374 Informative Direct
Cellular Component (CC) side of membrane 0.0006504 Informative Direct
Cellular Component (CC) extracellular space 0.0016 Informative Inherited
Cellular Component (CC) cell junction 0.0166 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 0.00000000000004908 Highly Informative Direct
Cellular Component (CC) proteinaceous extracellular matrix 0.01933 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)hypothyroidism0.00005961Highly 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 variant0.00003469Moderately InformativeDirect
Worm Phenotype (WP)basement membrane remodeling variant0.00001679InformativeDirect

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 adhesion0.000002126InformativeDirect
Biological processGrowth regulation0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell junction0.000009951Moderately InformativeDirect
Cellular componentExtracellular matrix0.000000006553InformativeDirect
Cellular componentTight junction0.00000000000001595Highly InformativeDirect
Cellular componentBasement membrane0.0003799Highly InformativeDirect
DomainSignal0Least InformativeDirect
DomainEGF-like domain0.0001613InformativeDirect
Molecular functionCalcium0.000000000008067Moderately InformativeDirect
Molecular functionGrowth factor binding0Highly InformativeDirect
Post-translational modificationDevelopmental protein0.000001497Moderately InformativeDirect
Post-translational modificationProtease inhibitor0.0000007991InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationGlycoprotein0.000000000000001793Least InformativeDirect
Post-translational modificationProteoglycan0.00000000001699InformativeDirect
Post-translational modificationSulfation0.00000001774InformativeDirect
Post-translational modificationHeparan sulfate0.0000004909Highly 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 ]