SUPERFAMILY 1.75 HMM library and genome assignments server

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SET domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   beta-clip [ 51268] (7)
Superfamily:   SET domain [ 82199] (3)
Families:   Histone lysine methyltransferases [ 82200] (3)
  Viral histone H3 Lysine 27 Methyltransferase [ 82207]
  RuBisCo LSMT catalytic domain [ 82210]


Superfamily statistics
Genomes (940) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 18,958 56,585 13
Proteins 18,582 55,527 13


Functional annotation
General category Processes_IC
Detailed category Ion metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0Least InformativeDirect
Enzyme Commission (EC)Methyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)primary immunodeficiency disease0.03462InformativeInherited
Disease Ontology (DO)phagocyte bactericidal dysfunction0.000007305Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Autosomal dominant inheritance0.0007262Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0.004171Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.0194Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.03224Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.0578Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.104Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.1125Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.1676Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.0001885Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.000193Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.0004743Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.0009502Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of forebrain morphology0.005479Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.007965Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.01356Moderately InformativeInherited
Phenotypic Abnormality (PA)Aplasia/Hypoplasia involving the central nervous system0.02202Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.02338Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skull0.03467Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.05021Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.05194Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.06149Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.1043Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.139Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.2127Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.3899Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hip bone0.00000002448InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the testis0.00003004InformativeDirect
Phenotypic Abnormality (PA)Abnormal ear morphology0.002021InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.003668InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the synovia0.01197InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb joint0.02095InformativeInherited
Phenotypic Abnormality (PA)Joint dislocation0.03054InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the dentition0.03099InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the forehead0.03148InformativeInherited
Phenotypic Abnormality (PA)Abnormality of body weight0.158InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.1778InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.2213InformativeInherited
Phenotypic Abnormality (PA)Abnormality of joint mobility0.2301InformativeInherited
Phenotypic Abnormality (PA)Abdominal symptom0.2454InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the palm0.33InformativeInherited
Phenotypic Abnormality (PA)Hypospadias0.0000005379Highly InformativeDirect
Phenotypic Abnormality (PA)Ventriculomegaly0.000001198Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the pinna0.00001997Highly InformativeDirect
Phenotypic Abnormality (PA)Posteriorly rotated ears0.00005075Highly InformativeDirect
Phenotypic Abnormality (PA)Precocious puberty0.00009354Highly InformativeDirect
Phenotypic Abnormality (PA)Downturned corners of mouth0.0002485Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic male external genitalia0.0004172Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the frontal hairline0.0007101Highly InformativeDirect
Phenotypic Abnormality (PA)Single transverse palmar crease0.0007165Highly InformativeDirect
Phenotypic Abnormality (PA)Hearing impairment0.00109Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the radius0.004067Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the middle ear0.004349Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the voice0.004816Highly InformativeInherited
Phenotypic Abnormality (PA)Synostosis of joints0.0772Highly InformativeInherited
Phenotypic Abnormality (PA)Atrophy/Degeneration affecting the cerebrum0.124Highly InformativeInherited
Phenotypic Abnormality (PA)Misalignment of teeth0.471Highly 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 phenotype0.3253Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.3508Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.3753Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.0008799Moderately InformativeDirect
Mammalian Phenotype (MP)neoplasm0.2004Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.2351Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.3216Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.9596Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal B cell differentiation0.0009001InformativeDirect
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.001485InformativeInherited

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 variant0.07255Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.1383Least InformativeInherited
Worm Phenotype (WP)cell development variant0.3192Least InformativeInherited
Worm Phenotype (WP)life span variant0Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000001267Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.04154Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.1916Moderately InformativeInherited
Worm Phenotype (WP)sterile progeny0.6026Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.8314Moderately InformativeInherited
Worm Phenotype (WP)protein modification variant0.00000002067InformativeDirect
Worm Phenotype (WP)maintenance of gene silencing variant0.00003531InformativeDirect
Worm Phenotype (WP)vulva development variant0.007838InformativeInherited
Worm Phenotype (WP)VPC competence variant0.1052InformativeInherited
Worm Phenotype (WP)transgenerational loss of fertility0.00000000002314Highly InformativeDirect
Worm Phenotype (WP)apoptosis increased0.0000003666Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.000002397Highly InformativeDirect
Worm Phenotype (WP)spontaneous mutation rate increased0.00002697Highly InformativeDirect
Worm Phenotype (WP)shortened life span0.0002609Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.01712Highly InformativeInherited
Worm Phenotype (WP)germline proliferation variant0.02523Highly InformativeInherited
Worm Phenotype (WP)antibody staining variant0.2441Highly InformativeInherited
Worm Phenotype (WP)transgene silencing variant0.4862Highly InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation0.000000001896InformativeDirect
Fly Phenotype (FP)suppressor of variegation0.0000000004194Highly InformativeDirect
Fly Phenotype (FP)non-suppressor of variegation0.00002015Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00009287Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)multi-tissue structure0.2257Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.393Least InformativeInherited
Fly Anatomy (FA)adult0.4388Least InformativeInherited
Fly Anatomy (FA)larva0.7478Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)thoracic segment0.1337Moderately InformativeInherited
Fly Anatomy (FA)appendage0.4291Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.4431Moderately InformativeInherited
Fly Anatomy (FA)adult integumentary system0.5946Moderately InformativeInherited
Fly Anatomy (FA)adult thorax0.6096Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.7657Moderately InformativeInherited
Fly Anatomy (FA)larval thoracic segment0.004236InformativeInherited
Fly Anatomy (FA)imaginal disc0.03245InformativeInherited
Fly Anatomy (FA)leg0.04619InformativeInherited
Fly Anatomy (FA)adult metathoracic segment0.002487Highly InformativeInherited

Document: FA 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

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0Moderately InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase0InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 5 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 SET domain 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 5 hidden Markov models representing the SET domain 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 · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]