SUPERFAMILY 1.75 HMM library and genome assignments server

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Transforming growth factor (TGF)-beta family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   Cystine-knot cytokines [ 57500]
Superfamily:   Cystine-knot cytokines [ 57501] (7)
Family:   Transforming growth factor (TGF)-beta [ 57507] (7)


Family statistics
Genomes (140) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 1,930 6,046 10
Proteins 1,929 6,040 10


Disease Ontology (DO)

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show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.3275Least InformativeInherited
Disease Ontology (DO)nervous system disease0.8355Least InformativeInherited
Disease Ontology (DO)benign neoplasm0.00002999Moderately InformativeDirect
Disease Ontology (DO)syndrome0.01516Moderately InformativeInherited
Disease Ontology (DO)artery disease0.3183Moderately InformativeInherited
Disease Ontology (DO)connective tissue disease0.6457Moderately InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.7203Moderately InformativeInherited
Disease Ontology (DO)hypertension0.0001539InformativeDirect
Disease Ontology (DO)physical disorder0.000375InformativeDirect
Disease Ontology (DO)organ system benign neoplasm0.008517InformativeInherited
Disease Ontology (DO)eye disease0.0539InformativeInherited
Disease Ontology (DO)female reproductive system disease0.06972InformativeInherited
Disease Ontology (DO)arthropathy0.07017InformativeInherited
Disease Ontology (DO)male reproductive organ cancer0.2212InformativeInherited
Disease Ontology (DO)premature ovarian failure0.0000005094Highly InformativeDirect
Disease Ontology (DO)polycystic ovary syndrome0.000755Highly InformativeDirect
Disease Ontology (DO)inner ear disease0.00132Highly InformativeInherited
Disease Ontology (DO)gonadal disease0.006323Highly InformativeInherited
Disease Ontology (DO)corneal disease0.008565Highly InformativeInherited
Disease Ontology (DO)integumentary system cancer0.01935Highly 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 digestive system0.041Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.07124Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.147Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1806Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.2477Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.01209Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.0236Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system morphology0.03217Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal vascular morphology0.05078Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.4948Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.5942Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.7734Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral vasculature0.04045InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.05724InformativeInherited
Phenotypic Abnormality (PA)Abnormal systemic arterial morphology0.2437InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.5967InformativeInherited
Phenotypic Abnormality (PA)Aplasia/hypoplasia involving bones of the extremities0.6203InformativeInherited
Phenotypic Abnormality (PA)Abnormal finger phalanx morphology0.9359InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the phalanges of the hand0.04175Highly InformativeInherited
Phenotypic Abnormality (PA)Stroke0.0966Highly InformativeInherited
Phenotypic Abnormality (PA)Cerebral ischemia0.2579Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal hand morphology0.3555Highly InformativeInherited
Phenotypic Abnormality (PA)Short digit0.3662Highly InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of fingers0.4298Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)endocrine/exocrine gland phenotype0.004396Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.03496Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.04697Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.105Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.1329Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.2946Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.3815Least InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.0006643Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal craniofacial morphology0.0008564Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.0037Moderately InformativeInherited
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.009871Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.02371Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.02441Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.04725Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.07344Moderately InformativeInherited
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.07388Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.0757Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal axial skeleton morphology0.08123Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.1187Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.1489Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.32Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.3564Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryo morphology0.4375Moderately InformativeInherited
Mammalian Phenotype (MP)adipose tissue phenotype0.4817Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.5021Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5168Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.7369Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal bone ossification0.0004243InformativeDirect
Mammalian Phenotype (MP)decreased litter size0.0007369InformativeDirect
Mammalian Phenotype (MP)abnormal germ cell morphology0.001128InformativeInherited
Mammalian Phenotype (MP)abnormal autopod morphology0.00454InformativeInherited
Mammalian Phenotype (MP)abnormal heart septum morphology0.04958InformativeInherited
Mammalian Phenotype (MP)abnormal limb bone morphology0.07023InformativeInherited
Mammalian Phenotype (MP)abnormal mouth morphology0.07275InformativeInherited
Mammalian Phenotype (MP)abnormal heart development0.07537InformativeInherited
Mammalian Phenotype (MP)abnormal fat pad morphology0.08437InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.1612InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2066InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.2314InformativeInherited
Mammalian Phenotype (MP)abnormal ovary morphology0.2747InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.3082InformativeInherited
Mammalian Phenotype (MP)abnormal cell migration0.4272InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.4464InformativeInherited
Mammalian Phenotype (MP)abnormal long bone morphology0.4851InformativeInherited
Mammalian Phenotype (MP)abnormal jaw morphology0.7194InformativeInherited
Mammalian Phenotype (MP)cleft palate0.0000004094Highly InformativeDirect
Mammalian Phenotype (MP)abnormal follicle stimulating hormone level0.000004654Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating gonadotropin level0.00001856Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating pituitary hormone level0.0004006Highly InformativeDirect
Mammalian Phenotype (MP)abnormal atrioventricular valve morphology0.0006074Highly InformativeDirect
Mammalian Phenotype (MP)abnormal atrioventricular cushion morphology0.0008235Highly InformativeDirect
Mammalian Phenotype (MP)abnormal germ layer morphology0.002354Highly InformativeInherited
Mammalian Phenotype (MP)impaired somite development0.00972Highly InformativeInherited
Mammalian Phenotype (MP)abnormal autonomic nervous system morphology0.01269Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb development0.0135Highly InformativeInherited
Mammalian Phenotype (MP)abnormal middle ear morphology0.01606Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cornea morphology0.01772Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart atrium morphology0.02066Highly InformativeInherited
Mammalian Phenotype (MP)abnormal temporal bone morphology0.02476Highly InformativeInherited
Mammalian Phenotype (MP)abnormal abdominal fat pad morphology0.05342Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vitelline vasculature morphology0.06979Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.07188Highly InformativeInherited
Mammalian Phenotype (MP)abnormal urinary system development0.09327Highly InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle mass0.1201Highly InformativeInherited
Mammalian Phenotype (MP)abnormal female germ cell morphology0.1481Highly InformativeInherited
Mammalian Phenotype (MP)abnormal rib joint0.1549Highly InformativeInherited
Mammalian Phenotype (MP)abnormal maxilla morphology0.1666Highly InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.1783Highly InformativeInherited
Mammalian Phenotype (MP)absent gametes0.2629Highly InformativeInherited
Mammalian Phenotype (MP)abnormal mandible morphology0.2943Highly InformativeInherited
Mammalian Phenotype (MP)abnormal tooth morphology0.5355Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.02517Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.04547Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.06178Least InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.0003908Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.003612Moderately InformativeInherited
Worm Phenotype (WP)body region morphology variant0.003656Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.005433Moderately InformativeInherited
Worm Phenotype (WP)chemical response variant0.00606Moderately InformativeInherited
Worm Phenotype (WP)transgene expression reduced0.0000211InformativeDirect
Worm Phenotype (WP)egg laying variant0.0009685InformativeDirect
Worm Phenotype (WP)synapse morphology variant0.0000001951Highly InformativeDirect
Worm Phenotype (WP)anchor cell invasion variant0.0000003329Highly InformativeDirect
Worm Phenotype (WP)egg laying defective0.00005515Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)circadian rhythm defective0InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)larva0Least InformativeDirect
Fly Anatomy (FA)adult0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)nervous system0.05579Least InformativeInherited
Fly Anatomy (FA)tagma0.113Least InformativeInherited
Fly Anatomy (FA)segment0.3453Least InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.0301Moderately InformativeInherited
Fly Anatomy (FA)abdomen0.03211Moderately InformativeInherited
Fly Anatomy (FA)late embryo0.07825Moderately InformativeInherited
Fly Anatomy (FA)embryonic/larval tracheal system0.01329InformativeInherited
Fly Anatomy (FA)embryonic/larval peripheral nervous system0.01361InformativeInherited
Fly Anatomy (FA)cell component0.01936InformativeInherited
Fly Anatomy (FA)embryonic/larval neuromuscular junction0.0002608Highly InformativeDirect
Fly Anatomy (FA)integumentary specialisation0.005081Highly InformativeInherited
Fly Anatomy (FA)abdominal segment 80.04271Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.4756Least InformativeInherited
Zebrafish Anatomy (ZA)anatomical cluster0.4943Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.8685Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system1Least InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.07565Moderately InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.7586Moderately InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.0004658InformativeDirect
Zebrafish Anatomy (ZA)endocrine system0.003667InformativeInherited
Zebrafish Anatomy (ZA)diencephalon0.04378InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.09654InformativeInherited
Zebrafish Anatomy (ZA)floor plate0.0002043Highly InformativeDirect
Zebrafish Anatomy (ZA)male organism0.0004229Highly InformativeDirect
Zebrafish Anatomy (ZA)female organism0.000845Highly InformativeDirect
Zebrafish Anatomy (ZA)gonad0.006426Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.004645Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.07301Least InformativeInherited
Xenopus ANatomical entity (XAN)urogenital system1Least InformativeInherited
Xenopus ANatomical entity (XAN)head1Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk1Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical cluster1Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.0000005824Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.003022Moderately InformativeInherited
Xenopus ANatomical entity (XAN)ectoderm0.6869Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical direction0.00000000002519InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.000003252InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space0.00000402InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.000004979InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.00002647InformativeDirect
Xenopus ANatomical entity (XAN)mesenchyme0.0002439InformativeDirect
Xenopus ANatomical entity (XAN)animal hemisphere0.0009509InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.002148InformativeInherited
Xenopus ANatomical entity (XAN)neuroectoderm0.007455InformativeInherited
Xenopus ANatomical entity (XAN)surface structure0.4212InformativeInherited
Xenopus ANatomical entity (XAN)urinary system0.4452InformativeInherited
Xenopus ANatomical entity (XAN)limb0.8501InformativeInherited
Xenopus ANatomical entity (XAN)head mesenchyme0.00000000588Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesoderm0.0000001282Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.000001741Highly InformativeDirect
Xenopus ANatomical entity (XAN)pelvic appendage0.000007008Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.00001585Highly InformativeDirect
Xenopus ANatomical entity (XAN)neurogenic placode0.00002023Highly InformativeDirect
Xenopus ANatomical entity (XAN)periocular region0.00002972Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.00004465Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.00007272Highly InformativeDirect
Xenopus ANatomical entity (XAN)limb bud0.0007467Highly InformativeDirect
Xenopus ANatomical entity (XAN)lateral plate mesoderm0.01882Highly InformativeInherited
Xenopus ANatomical entity (XAN)pronephric tubule0.02421Highly InformativeInherited
Xenopus ANatomical entity (XAN)primordium0.05337Highly InformativeInherited
Xenopus ANatomical entity (XAN)archenteron0.1525Highly InformativeInherited
Xenopus DEvelopment stage (XDE)embryonic stage0.007334Moderately InformativeInherited

Document: XA annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · 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 43 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 Cystine-knot cytokines 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) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Internal database links ]