SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from supfam.org. Please contact us if you experience any problems.

  Home > SCOP hierarchy > TNF-like family


TNF-like family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   TNF-like [ 49841]
Superfamily:   TNF-like [ 49842]
Family:   TNF-like [ 49843] (14)

Family statistics
Genomes (66) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 1,396 3,706 40
Proteins 1,396 3,700 40

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.09808Least InformativeInherited
Disease Ontology (DO)organ system cancer0.5504Least InformativeInherited
Disease Ontology (DO)connective tissue disease0.0000000002688Moderately InformativeDirect
Disease Ontology (DO)artery disease0.0001011Moderately InformativeDirect
Disease Ontology (DO)integumentary system disease0.0002163Moderately InformativeDirect
Disease Ontology (DO)urinary system disease0.0002752Moderately InformativeDirect
Disease Ontology (DO)disease of metabolism0.004826Moderately InformativeInherited
Disease Ontology (DO)hematologic cancer0.006097Moderately InformativeInherited
Disease Ontology (DO)hematopoietic system disease0.007357Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.2284Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease0.3834Moderately InformativeInherited
Disease Ontology (DO)atherosclerosis0.000001768InformativeDirect
Disease Ontology (DO)arthritis0.000001906InformativeDirect
Disease Ontology (DO)hemorrhagic disease0.000002044InformativeDirect
Disease Ontology (DO)myeloid neoplasm0.00002312InformativeDirect
Disease Ontology (DO)multiple sclerosis0.0000442InformativeDirect
Disease Ontology (DO)scleroderma0.0005815InformativeDirect
Disease Ontology (DO)hypotrichosis0.0006467InformativeDirect
Disease Ontology (DO)lupus erythematosus0.0007782InformativeDirect
Disease Ontology (DO)Kawasaki disease0.0007944InformativeDirect
Disease Ontology (DO)eye disease0.005535InformativeInherited
Disease Ontology (DO)bullous skin disease0.02795InformativeInherited
Disease Ontology (DO)pancreas disease0.04101InformativeInherited
Disease Ontology (DO)heart disease0.07383InformativeInherited
Disease Ontology (DO)lymphoma0.1131InformativeInherited
Disease Ontology (DO)coronary artery disease0.1483InformativeInherited
Disease Ontology (DO)glucose metabolism disease1InformativeInherited
Disease Ontology (DO)rheumatoid arthritis0.00000009587Highly InformativeDirect
Disease Ontology (DO)pemphigus0.00001513Highly InformativeDirect
Disease Ontology (DO)primary open angle glaucoma0.00002444Highly InformativeDirect
Disease Ontology (DO)dilated cardiomyopathy0.00003039Highly InformativeDirect
Disease Ontology (DO)thrombocytopenia0.0005121Highly InformativeDirect
Disease Ontology (DO)meningitis0.0006985Highly InformativeDirect
Disease Ontology (DO)lipid storage disease0.001064Highly InformativeInherited
Disease Ontology (DO)endocrine pancreas disease0.02789Highly InformativeInherited
Disease Ontology (DO)primary immunodeficiency disease0.06948Highly InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the immune system0.006461Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.1249Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.2883Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.9699Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.0007971Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the lymphatic system0.06013Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system physiology0.3181Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.4588Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lymph nodes0.00006064InformativeDirect
Phenotypic Abnormality (PA)Recurrent infections0.0009185InformativeDirect
Phenotypic Abnormality (PA)Abnormal cellular physiology0.03056InformativeInherited
Phenotypic Abnormality (PA)Abnormality of complement system0.07311InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal physiology0.1046InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.2371InformativeInherited
Phenotypic Abnormality (PA)Nephritis0.0003615Highly InformativeDirect
Phenotypic Abnormality (PA)Autoimmunity0.002666Highly InformativeInherited
Phenotypic Abnormality (PA)Increased antibody level in blood0.1804Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)hematopoietic system phenotype0.01264Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.0157Least InformativeInherited
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.3014Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.012Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.03141Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.03616Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal endocrine gland morphology0.1099Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.1786Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.3797Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.5385Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal interferon-gamma secretion0.00005067InformativeDirect
Mammalian Phenotype (MP)abnormal lymph node morphology0.0001565InformativeDirect
Mammalian Phenotype (MP)abnormal spleen morphology0.008536InformativeInherited
Mammalian Phenotype (MP)abnormal retinal neuronal layer morphology0.01376InformativeInherited
Mammalian Phenotype (MP)abnormal thymus morphology0.0208InformativeInherited
Mammalian Phenotype (MP)abnormal immunoglobulin level0.02402InformativeInherited
Mammalian Phenotype (MP)abnormal lymph organ size0.274InformativeInherited
Mammalian Phenotype (MP)abnormal spleen germinal center morphology0.00001924Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-10 secretion0.000057Highly InformativeDirect
Mammalian Phenotype (MP)arthritis0.00006732Highly InformativeDirect
Mammalian Phenotype (MP)abnormal thymus medulla morphology0.001319Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cervical lymph node morphology0.06162Highly InformativeInherited
Mammalian Phenotype (MP)abnormal Peyer's patch size0.3303Highly InformativeInherited

Document: MP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) ]

Internal database links

   
Superfamily level     Family level

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.
   
Superfamily level     Family level

Alignments of sequences to 39 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.


Superfamily level

Browse and view proteins in genomes which have different domain combinations including a TNF-like domain.
   
Superfamily level     Family level

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.


Jump to [ Top of page · SCOP classification · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

Please send feedback, comments or questions to superfamily@cs.bris.ac.uk or use the feedback form.

© Copyright 2013 The SUPERFAMILY authors and Julian Gough.