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TSP-1 type 1 repeat superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   TSP-1 type 1 repeat [ 82894]
Superfamily:   TSP-1 type 1 repeat [ 82895]
Families:   TSP-1 type 1 repeat [ 82896]


Superfamily statistics
Genomes (227) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 28,619 78,679 2
Proteins 8,104 23,035 1


Functional annotation
General category Processes_EC
Detailed category Cell adhesion

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 peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.2981Least InformativeInherited
Disease Ontology (DO)connective tissue disease0.00013Moderately InformativeDirect
Disease Ontology (DO)nervous system cancer0.3495Moderately InformativeInherited
Disease Ontology (DO)arthritis0.00005591InformativeDirect
Disease Ontology (DO)peripheral nervous system neoplasm0.1117InformativeInherited
Disease Ontology (DO)neurofibroma0.0000003746Highly 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 limbs0.3829Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.853Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.937Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.04295Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.2621Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.6498Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal globe morphology0.7006Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal morphology of bones of the lower limbs0.1057InformativeInherited
Phenotypic Abnormality (PA)Abnormality of long bone morphology0.2696InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lens0.2771InformativeInherited
Phenotypic Abnormality (PA)Recurrent infections0.7511InformativeInherited
Phenotypic Abnormality (PA)Recurrent Neisserial infections0.0000007596Highly InformativeDirect
Phenotypic Abnormality (PA)Ectopia lentis0.0007224Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of femoral epiphysis0.001149Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal skeleton morphology0.6334Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal compact bone morphology0.0746InformativeInherited
Mammalian Phenotype (MP)abnormal compact bone thickness0.01719Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0.5005Least InformativeInherited
Worm Phenotype (WP)pericellular component development variant0.0000001486Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.9237Moderately InformativeInherited
Worm Phenotype (WP)basement membrane remodeling variant0.00000001965InformativeDirect
Worm Phenotype (WP)distal tip cell migration variant0.0001649Highly InformativeDirect
Worm Phenotype (WP)anchor cell invasion variant0.0007362Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo1Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue1Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure0.3793Moderately InformativeInherited
Xenopus ANatomical entity (XAN)endoderm0.00585InformativeInherited
Xenopus ANatomical entity (XAN)hypochord0.00008393Highly InformativeDirect
Xenopus DEvelopment stage (XDE)post-embryonic stage0.1723Least InformativeInherited
Xenopus DEvelopment stage (XDE)premetamorphosis stage0.0000000002329Highly InformativeDirect

Document: XA 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 peptide bonds (peptidases)0Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect

Document: EC annotation of SCOP domains

InterPro annotation
Cross references IPR000884 SSF82895 Protein matches
Abstract

This repeat was first described in 1986 by Lawler and Hynes [PubMed2430973]. It was found in the thrombospondin protein where it is repeated 3 times. Now a number of proteins involved in the complement pathway (properdin, C6, C7, C8A, C8B, C9) [PubMed2459396] as well as extracellular matrix protein like mindin, F-spondin [PubMed10409509], SCO-spondin and even the circumsporozoite surface protein 2 and TRAP proteins of Plasmodium [PubMed10508153, PubMed1501644] contain one or more instance of this repeat. It has been involved in cell-cell interraction, inhibition of angiogenesis [PubMed10500044] and apoptosis [PubMed9135017].

The intron-exon organisation of the properdin gene confirms the hypothesis that the repeat might have evolved by a process involving exon shuffling [PubMed1417780]. A study of properdin structure provides some information about the structure of the thrombospondin type I repeat [PubMed1868073].


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) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · 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 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 TSP-1 type 1 repeat 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 TSP-1 type 1 repeat 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) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · Internal database links ]