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 disease0.03475InformativeInherited
Disease Ontology (DO)phagocyte bactericidal dysfunction0.000007405Highly 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 inheritance0.0003969Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limbs0.06139Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.1579Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.2502Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.2595Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.2846Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.3144Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.6215Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.006998Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.01245Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.01491Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.06238Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ear0.06808Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.08367Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.08652Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.1024Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.1374Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.149Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.1897Moderately InformativeInherited
Phenotypic Abnormality (PA)Growth abnormality0.2728Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system0.3854Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hip bone0.000002348InformativeDirect
Phenotypic Abnormality (PA)Congenital abnormal hair pattern0.0008167InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the testis0.0008872InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the lower urinary tract0.002037InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the synovia0.01553InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb joint0.02689InformativeInherited
Phenotypic Abnormality (PA)Joint dislocation0.03571InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the forehead0.06398InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the outer ear0.08759InformativeInherited
Phenotypic Abnormality (PA)Abnormality of body weight0.164InformativeInherited
Phenotypic Abnormality (PA)Abnormality of joint mobility0.2155InformativeInherited
Phenotypic Abnormality (PA)Abdominal symptom0.2193InformativeInherited
Phenotypic Abnormality (PA)Hypospadias0.00001061Highly InformativeDirect
Phenotypic Abnormality (PA)Ventriculomegaly0.00005195Highly InformativeDirect
Phenotypic Abnormality (PA)Precocious puberty0.0002744Highly InformativeDirect
Phenotypic Abnormality (PA)Obesity0.0003858Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the pinna0.0004148Highly InformativeDirect
Phenotypic Abnormality (PA)Posteriorly rotated ears0.0004558Highly InformativeDirect
Phenotypic Abnormality (PA)Downturned corners of mouth0.0009321Highly InformativeDirect
Phenotypic Abnormality (PA)Feeding difficulties0.0009404Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the middle ear0.004015Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the radius0.009792Highly InformativeInherited
Phenotypic Abnormality (PA)Hearing impairment0.0148Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the voice0.02007Highly InformativeInherited
Phenotypic Abnormality (PA)Synostosis of joints0.06943Highly InformativeInherited
Phenotypic Abnormality (PA)Involuntary movements0.4047Highly 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 phenotype0.3252Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.3505Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.3751Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.0008858Moderately InformativeDirect
Mammalian Phenotype (MP)neoplasm0.2003Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.2351Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.3217Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.9597Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal B cell differentiation0.0008991InformativeDirect
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.001484InformativeInherited

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 variant0.07269Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.139Least InformativeInherited
Worm Phenotype (WP)cell development variant0.3263Least InformativeInherited
Worm Phenotype (WP)life span variant0Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.000001287Moderately InformativeDirect
Worm Phenotype (WP)reproductive system development variant0.04123Moderately InformativeInherited
Worm Phenotype (WP)gametogenesis variant0.188Moderately InformativeInherited
Worm Phenotype (WP)sterile progeny0.6054Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.7915Moderately InformativeInherited
Worm Phenotype (WP)protein modification variant0.00000002006InformativeDirect
Worm Phenotype (WP)maintenance of gene silencing variant0.00003488InformativeDirect
Worm Phenotype (WP)vulva development variant0.007927InformativeInherited
Worm Phenotype (WP)VPC competence variant0.1018InformativeInherited
Worm Phenotype (WP)transgenerational loss of fertility0.00000000002283Highly InformativeDirect
Worm Phenotype (WP)apoptosis increased0.0000003772Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.000002364Highly InformativeDirect
Worm Phenotype (WP)spontaneous mutation rate increased0.00002668Highly InformativeDirect
Worm Phenotype (WP)shortened life span0.00003357Highly InformativeDirect
Worm Phenotype (WP)cell number decreased0.01743Highly InformativeInherited
Worm Phenotype (WP)germline proliferation variant0.02616Highly InformativeInherited
Worm Phenotype (WP)antibody staining variant0.2462Highly InformativeInherited
Worm Phenotype (WP)transgene silencing variant0.4864Highly 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 variegation0.000000002034InformativeDirect
Fly Phenotype (FP)suppressor of variegation0.0000000004501Highly InformativeDirect
Fly Phenotype (FP)non-suppressor of variegation0.00002076Highly InformativeDirect
Fly Phenotype (FP)homeotic0.00009661Highly 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 structure0.1242Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.2749Least InformativeInherited
Fly Anatomy (FA)adult0.3721Least InformativeInherited
Fly Anatomy (FA)larva0.7075Least InformativeInherited
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited
Fly Anatomy (FA)larval tagma0.0523Moderately InformativeInherited
Fly Anatomy (FA)thoracic segment0.07776Moderately InformativeInherited
Fly Anatomy (FA)tagmatic subdivision of integument0.3479Moderately InformativeInherited
Fly Anatomy (FA)appendage0.4271Moderately InformativeInherited
Fly Anatomy (FA)adult integumentary system0.5925Moderately InformativeInherited
Fly Anatomy (FA)adult thorax0.6074Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.7717Moderately InformativeInherited
Fly Anatomy (FA)larval thoracic segment0.004597InformativeInherited
Fly Anatomy (FA)imaginal disc0.03256InformativeInherited
Fly Anatomy (FA)leg0.03333InformativeInherited
Fly Anatomy (FA)adult metathoracic segment0.001628Highly 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 10 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 10 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 ]