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4-helical cytokines superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   4-helical cytokines [ 47265]
Superfamily:   4-helical cytokines [ 47266] (3)
Families:   Long-chain cytokines [ 47267] (9)
  Short-chain cytokines [ 47286] (13)
  Interferons/interleukin-10 (IL-10) [ 47305] (8)


Superfamily statistics
Genomes (67) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 2,870 10,209 79
Proteins 2,850 10,150 77


Functional annotation
General category Processes_EC
Detailed category Immune response

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.0001773Least InformativeDirect
Disease Ontology (DO)nervous system disease0.09157Least InformativeInherited
Disease Ontology (DO)skin disease0.000000001415Moderately InformativeDirect
Disease Ontology (DO)disease by infectious agent0.00000001577Moderately InformativeDirect
Disease Ontology (DO)hematologic cancer0.00000007246Moderately InformativeDirect
Disease Ontology (DO)hematopoietic system disease0.0000002221Moderately InformativeDirect
Disease Ontology (DO)gastrointestinal system disease0.00001272Moderately InformativeDirect
Disease Ontology (DO)syndrome0.0001276Moderately InformativeDirect
Disease Ontology (DO)disease of metabolism0.0003746Moderately InformativeDirect
Disease Ontology (DO)urinary system disease0.000486Moderately InformativeDirect
Disease Ontology (DO)connective tissue disease0.1096Moderately InformativeInherited
Disease Ontology (DO)disease of mental health0.1155Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease0.3543Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.4705Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.4825Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.8285Moderately InformativeInherited
Disease Ontology (DO)asthma0.00000000001772InformativeDirect
Disease Ontology (DO)periodontal disease0.00000000003717InformativeDirect
Disease Ontology (DO)multiple sclerosis0.00000003822InformativeDirect
Disease Ontology (DO)hemorrhagic disease0.000000191InformativeDirect
Disease Ontology (DO)inflammatory bowel disease0.0000002789InformativeDirect
Disease Ontology (DO)allergic rhinitis0.000002859InformativeDirect
Disease Ontology (DO)bullous pemphigoid0.00002766InformativeDirect
Disease Ontology (DO)myeloid neoplasm0.0001068InformativeDirect
Disease Ontology (DO)muscle tissue disease0.0002065InformativeDirect
Disease Ontology (DO)arthropathy0.0004847InformativeDirect
Disease Ontology (DO)schizophrenia0.0348InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.09171InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type IV disease0.137InformativeInherited
Disease Ontology (DO)lymphoma0.1576InformativeInherited
Disease Ontology (DO)collagen disease0.1667InformativeInherited
Disease Ontology (DO)female reproductive organ cancer0.2079InformativeInherited
Disease Ontology (DO)primary immunodeficiency disease0.2577InformativeInherited
Disease Ontology (DO)viral infectious disease0.313InformativeInherited
Disease Ontology (DO)rheumatic disease0.3165InformativeInherited
Disease Ontology (DO)arthritis0.8915InformativeInherited
Disease Ontology (DO)parasitic protozoa infectious disease0.9602InformativeInherited
Disease Ontology (DO)glucose metabolism disease1InformativeInherited
Disease Ontology (DO)rheumatoid arthritis0.00000003721Highly InformativeDirect
Disease Ontology (DO)celiac disease0.00000009134Highly InformativeDirect
Disease Ontology (DO)Chagas disease0.000001772Highly InformativeDirect
Disease Ontology (DO)opportunistic mycosis0.000004845Highly InformativeDirect
Disease Ontology (DO)agammaglobulinemia0.00004943Highly InformativeDirect
Disease Ontology (DO)otitis media0.0001197Highly InformativeDirect
Disease Ontology (DO)sarcoidosis0.0001477Highly InformativeDirect
Disease Ontology (DO)aggressive systemic mastocytosis0.0005129Highly InformativeDirect
Disease Ontology (DO)pertussis0.0007914Highly InformativeDirect
Disease Ontology (DO)eating disorder0.01512Highly 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 cardiovascular system0.1978Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.3147Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.4155Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.01011Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.0925Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.5408Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.5779Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral mucosa morphology0.005122InformativeInherited
Phenotypic Abnormality (PA)Abnormal thrombosis0.01423InformativeInherited
Phenotypic Abnormality (PA)Abnormal lung morphology0.0254InformativeInherited
Phenotypic Abnormality (PA)Edema0.09118InformativeInherited
Phenotypic Abnormality (PA)Recurrent aphthous stomatitis0.0001392Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal pericardium morphology0.0006468Highly InformativeDirect
Phenotypic Abnormality (PA)Serositis0.0009477Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the pleura0.01329Highly 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 phenotype0.00000371Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype0.00002678Least InformativeDirect
Mammalian Phenotype (MP)nervous system phenotype0.2371Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.3092Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.3166Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.5831Least InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.000007174Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal leukocyte physiology0.00001379Moderately InformativeDirect
Mammalian Phenotype (MP)neoplasm0.0001023Moderately InformativeDirect
Mammalian Phenotype (MP)respiratory system phenotype0.0001308Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal protein level0.0001857Moderately InformativeDirect
Mammalian Phenotype (MP)liver/biliary system phenotype0.001524Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.002273Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.002934Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.006785Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.02962Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.06706Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.08129Moderately InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.0848Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.09935Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system physiology0.1283Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.1336Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.1526Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.1669Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology0.3211Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.4245Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.4675Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune system organ morphology0.6332Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.8313Moderately InformativeInherited
Mammalian Phenotype (MP)increased susceptibility to infection0.00000000001418InformativeDirect
Mammalian Phenotype (MP)autoimmune response0.0000000053InformativeDirect
Mammalian Phenotype (MP)abnormal circulating cytokine level0.00002196InformativeDirect
Mammalian Phenotype (MP)abnormal female reproductive system physiology0.0001519InformativeDirect
Mammalian Phenotype (MP)abnormal liver physiology0.0001906InformativeDirect
Mammalian Phenotype (MP)abnormal natural killer cell mediated cytotoxicity0.0002795InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland morphology0.001079InformativeInherited
Mammalian Phenotype (MP)abnormal B lymphocyte antigen presentation0.002184InformativeInherited
Mammalian Phenotype (MP)abnormal intestine morphology0.008819InformativeInherited
Mammalian Phenotype (MP)abnormal extraembryonic tissue morphology0.01752InformativeInherited
Mammalian Phenotype (MP)abnormal humoral immune response0.03775InformativeInherited
Mammalian Phenotype (MP)abnormal intestine physiology0.07443InformativeInherited
Mammalian Phenotype (MP)abnormal viscerocranium morphology0.07494InformativeInherited
Mammalian Phenotype (MP)increased gland tumor incidence0.09585InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.1834InformativeInherited
Mammalian Phenotype (MP)abnormal lymph node morphology0.1974InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin level0.4432InformativeInherited
Mammalian Phenotype (MP)abnormal respiratory function0.5213InformativeInherited
Mammalian Phenotype (MP)abnormal response to transplant0.0000002825Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-10 secretion0.0000002989Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland development0.000001147Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating interleukin-17 level0.000002414Highly InformativeDirect
Mammalian Phenotype (MP)abnormal level of surface class II molecules0.000005639Highly InformativeDirect
Mammalian Phenotype (MP)abnormal IgG2a level0.00001254Highly InformativeDirect
Mammalian Phenotype (MP)abnormal airway responsiveness0.00008386Highly InformativeDirect
Mammalian Phenotype (MP)abnormal IgE level0.000127Highly InformativeDirect
Mammalian Phenotype (MP)abnormal susceptibility to weight loss0.0001923Highly InformativeDirect
Mammalian Phenotype (MP)abnormal glial cell physiology0.0003168Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland duct morphology0.0003852Highly InformativeDirect
Mammalian Phenotype (MP)increased gonad tumor incidence0.0004091Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mammary gland alveolus morphology0.0005346Highly InformativeDirect
Mammalian Phenotype (MP)abnormal alveolar process morphology0.0007168Highly InformativeDirect
Mammalian Phenotype (MP)respiratory system inflammation0.0009961Highly InformativeDirect
Mammalian Phenotype (MP)abnormal mesenteric lymph node morphology0.001681Highly InformativeInherited
Mammalian Phenotype (MP)abnormal ovulation cycle0.04972Highly InformativeInherited
Mammalian Phenotype (MP)abnormal large intestine morphology0.1799Highly InformativeInherited
Mammalian Phenotype (MP)abnormal susceptibility to induced colitis0.2781Highly 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

InterPro annotation
Cross references IPR009079 SSF47266 Protein matches
Abstract

These domains display a core structure consisting of a closed bundle of four helices in a left-handed twist, with two crossover connections. Proteins containing such domains include long-chain cytokines, such as leukaemia inhibitory factor (LIF) [PubMed14511776], the growth hormone somatotropin [PubMed14507421], interleukin-6 [PubMed9118960] and leptin [PubMed9144295]; short-chain cytokines, such as erythropoietin [PubMed9783743], stem cell factor (SCF) [PubMed10880433], macrophage colony-stimulating factor (M-CSF) and interleukin-2, -3, -4, -5 and -13; and interferons/interleukin-10.


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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) ]

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 58 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 4-helical cytokines 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 58 hidden Markov models representing the 4-helical cytokines 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 · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Internal database links ]