SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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)

(
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 system0.03967Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.06694Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.1416Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1862Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.2384Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.01117Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.02208Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system morphology0.0301Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal vascular morphology0.05135Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.06745Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.4902Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.7643Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral vasculature0.0407InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.05146InformativeInherited
Phenotypic Abnormality (PA)Abnormal systemic arterial morphology0.2434InformativeInherited
Phenotypic Abnormality (PA)Aplasia/hypoplasia of the extremities0.3401InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.5983InformativeInherited
Phenotypic Abnormality (PA)Abnormal finger phalanx morphology0.942InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia of the phalanges of the hand0.04077Highly InformativeInherited
Phenotypic Abnormality (PA)Stroke0.09831Highly InformativeInherited
Phenotypic Abnormality (PA)Short finger0.2333Highly InformativeInherited
Phenotypic Abnormality (PA)Cerebral ischemia0.2477Highly 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 phenotype0.004402Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.03501Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.04704Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.1047Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.1326Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.2947Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.3811Least InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.0006558Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal craniofacial morphology0.0008568Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal head morphology0.003699Moderately InformativeInherited
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.009875Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.0238Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.02441Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.04753Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.07339Moderately InformativeInherited
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.0739Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.07566Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal axial skeleton morphology0.08091Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.1187Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.149Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.3194Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.3563Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryo morphology0.4375Moderately InformativeInherited
Mammalian Phenotype (MP)adipose tissue phenotype0.4819Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.5022Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5168Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.7369Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal bone ossification0.0004244InformativeDirect
Mammalian Phenotype (MP)decreased litter size0.0007375InformativeDirect
Mammalian Phenotype (MP)abnormal germ cell morphology0.001128InformativeInherited
Mammalian Phenotype (MP)abnormal autopod morphology0.004537InformativeInherited
Mammalian Phenotype (MP)abnormal heart septum morphology0.04977InformativeInherited
Mammalian Phenotype (MP)abnormal limb bone morphology0.0702InformativeInherited
Mammalian Phenotype (MP)abnormal mouth morphology0.07272InformativeInherited
Mammalian Phenotype (MP)abnormal heart development0.07558InformativeInherited
Mammalian Phenotype (MP)abnormal fat pad morphology0.08436InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton development0.1615InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2065InformativeInherited
Mammalian Phenotype (MP)abnormal thoracic cage morphology0.2301InformativeInherited
Mammalian Phenotype (MP)abnormal ovary morphology0.2746InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle morphology0.3081InformativeInherited
Mammalian Phenotype (MP)abnormal cell migration0.4272InformativeInherited
Mammalian Phenotype (MP)abnormal metabolism0.4467InformativeInherited
Mammalian Phenotype (MP)abnormal long bone morphology0.4851InformativeInherited
Mammalian Phenotype (MP)abnormal jaw morphology0.7194InformativeInherited
Mammalian Phenotype (MP)cleft palate0.0000004104Highly InformativeDirect
Mammalian Phenotype (MP)abnormal follicle stimulating hormone level0.000004659Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating gonadotropin level0.00001855Highly InformativeDirect
Mammalian Phenotype (MP)abnormal circulating pituitary hormone level0.0004004Highly InformativeDirect
Mammalian Phenotype (MP)abnormal atrioventricular valve morphology0.0006076Highly InformativeDirect
Mammalian Phenotype (MP)abnormal atrioventricular cushion morphology0.0008237Highly InformativeDirect
Mammalian Phenotype (MP)abnormal germ layer morphology0.002353Highly InformativeInherited
Mammalian Phenotype (MP)impaired somite development0.009716Highly InformativeInherited
Mammalian Phenotype (MP)abnormal autonomic nervous system morphology0.01268Highly InformativeInherited
Mammalian Phenotype (MP)abnormal limb development0.01349Highly InformativeInherited
Mammalian Phenotype (MP)abnormal middle ear morphology0.01605Highly InformativeInherited
Mammalian Phenotype (MP)abnormal cornea morphology0.01771Highly InformativeInherited
Mammalian Phenotype (MP)abnormal heart atrium morphology0.02073Highly InformativeInherited
Mammalian Phenotype (MP)abnormal temporal bone morphology0.02476Highly InformativeInherited
Mammalian Phenotype (MP)abnormal abdominal fat pad morphology0.05341Highly InformativeInherited
Mammalian Phenotype (MP)abnormal vitelline vasculature morphology0.06977Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.07188Highly InformativeInherited
Mammalian Phenotype (MP)abnormal urinary system development0.09354Highly InformativeInherited
Mammalian Phenotype (MP)abnormal skeletal muscle mass0.12Highly InformativeInherited
Mammalian Phenotype (MP)abnormal female germ cell morphology0.1481Highly InformativeInherited
Mammalian Phenotype (MP)abnormal rib joint0.1557Highly InformativeInherited
Mammalian Phenotype (MP)abnormal maxilla morphology0.1665Highly InformativeInherited
Mammalian Phenotype (MP)abnormal oogenesis0.1782Highly InformativeInherited
Mammalian Phenotype (MP)absent gametes0.2629Highly InformativeInherited
Mammalian Phenotype (MP)abnormal mandible morphology0.2941Highly InformativeInherited
Mammalian Phenotype (MP)abnormal tooth morphology0.5354Highly 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 variant0.02122Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.07557Least InformativeInherited
Worm Phenotype (WP)level of transgene expression variant0.000374Moderately InformativeDirect
Worm Phenotype (WP)chemical response variant0.002856Moderately InformativeInherited
Worm Phenotype (WP)organ system development variant0.005083Moderately InformativeInherited
Worm Phenotype (WP)body region morphology variant0.00708Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.00708Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.007101Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.007121Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.007462Moderately InformativeInherited
Worm Phenotype (WP)transgene expression reduced0.00002025InformativeDirect
Worm Phenotype (WP)nervous system morphology variant0.0003549InformativeDirect
Worm Phenotype (WP)egg laying variant0.0008801InformativeDirect
Worm Phenotype (WP)anchor cell invasion variant0.0000003314Highly InformativeDirect
Worm Phenotype (WP)egg laying defective0.00004808Highly InformativeDirect

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details) 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)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)somatic cell0Least InformativeDirect
Fly Anatomy (FA)nervous system0.06681Least InformativeInherited
Fly Anatomy (FA)tagma0.3889Least InformativeInherited
Fly Anatomy (FA)segment0.4163Least InformativeInherited
Fly Anatomy (FA)abdomen0.01414Moderately InformativeInherited
Fly Anatomy (FA)peripheral nervous system0.02978Moderately InformativeInherited
Fly Anatomy (FA)late embryo0.0534Moderately InformativeInherited
Fly Anatomy (FA)embryonic/larval peripheral nervous system0.0126InformativeInherited
Fly Anatomy (FA)embryonic/larval tracheal system0.01505InformativeInherited
Fly Anatomy (FA)cell component0.01869InformativeInherited
Fly Anatomy (FA)embryonic/larval neuromuscular junction0.0002346Highly InformativeDirect
Fly Anatomy (FA)integumentary specialisation0.005077Highly InformativeInherited
Fly Anatomy (FA)abdominal segment 80.0437Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)anatomical cluster0.3932Least InformativeInherited
Zebrafish Anatomy (ZA)multi-tissue structure0.5281Least InformativeInherited
Zebrafish Anatomy (ZA)cavitated compound organ0.8833Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.9706Least InformativeInherited
Zebrafish Anatomy (ZA)portion of tissue0.09525Moderately InformativeInherited
Zebrafish Anatomy (ZA)central nervous system0.7012Moderately InformativeInherited
Zebrafish Anatomy (ZA)embryonic structure0.0003352InformativeDirect
Zebrafish Anatomy (ZA)diencephalon0.03564InformativeInherited
Zebrafish Anatomy (ZA)pleuroperitoneal region0.09117InformativeInherited
Zebrafish Anatomy (ZA)floor plate0.0001877Highly InformativeDirect
Zebrafish Anatomy (ZA)male organism0.000217Highly InformativeDirect
Zebrafish Anatomy (ZA)female organism0.0005879Highly InformativeDirect
Zebrafish Anatomy (ZA)endocrine system0.002464Highly InformativeInherited
Zebrafish Anatomy (ZA)gonad0.004176Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.006643Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.08645Least InformativeInherited
Xenopus ANatomical entity (XAN)anatomical cluster0.9826Least InformativeInherited
Xenopus ANatomical entity (XAN)urogenital system1Least InformativeInherited
Xenopus ANatomical entity (XAN)head1Least InformativeInherited
Xenopus ANatomical entity (XAN)trunk1Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ1Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.000001395Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.0007435Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.7252Moderately InformativeInherited
Xenopus ANatomical entity (XAN)alimentary system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)viscus1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical direction0.0000000001678InformativeDirect
Xenopus ANatomical entity (XAN)cardiovascular system0.000002254InformativeDirect
Xenopus ANatomical entity (XAN)anatomical space0.000002291InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.00001192InformativeDirect
Xenopus ANatomical entity (XAN)notochord0.00001837InformativeDirect
Xenopus ANatomical entity (XAN)mesenchyme0.0001753InformativeDirect
Xenopus ANatomical entity (XAN)animal hemisphere0.0007914InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.001423InformativeInherited
Xenopus ANatomical entity (XAN)neuroectoderm0.004747InformativeInherited
Xenopus ANatomical entity (XAN)surface structure0.3786InformativeInherited
Xenopus ANatomical entity (XAN)urinary system0.3993InformativeInherited
Xenopus ANatomical entity (XAN)limb0.815InformativeInherited
Xenopus ANatomical entity (XAN)head mesenchyme0.000000004169Highly InformativeDirect
Xenopus ANatomical entity (XAN)head mesoderm0.0000001017Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastema0.00001276Highly InformativeDirect
Xenopus ANatomical entity (XAN)involuted dorsal mesoderm0.00001881Highly InformativeDirect
Xenopus ANatomical entity (XAN)periocular region0.00002417Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system0.0000346Highly InformativeDirect
Xenopus ANatomical entity (XAN)neurogenic placode0.00005972Highly InformativeDirect
Xenopus ANatomical entity (XAN)limb bud0.0006841Highly InformativeDirect
Xenopus ANatomical entity (XAN)neural groove0.0009116Highly InformativeDirect
Xenopus ANatomical entity (XAN)pronephric tubule0.02142Highly InformativeInherited
Xenopus ANatomical entity (XAN)primordium0.04069Highly InformativeInherited
Xenopus ANatomical entity (XAN)archenteron0.1221Highly 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 ]