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 disease0.03477InformativeInherited
Disease Ontology (DO)phagocyte bactericidal dysfunction0.000007425Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of limbs0.01608Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.05952Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.06828Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.08888Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.1289Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.1644Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.2202Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.432Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.0002778Moderately InformativeDirect
Phenotypic Abnormality (PA)Abnormality of limb bone morphology0.00331Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.0181Moderately InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.0509Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.05184Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.05316Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.0544Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal physiology0.08069Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.08294Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.08964Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the ear0.1016Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.1973Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.231Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.7328Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal testis morphology0.000001735InformativeDirect
Phenotypic Abnormality (PA)Global developmental delay0.0003578InformativeDirect
Phenotypic Abnormality (PA)Congenital abnormal hair pattern0.001007InformativeInherited
Phenotypic Abnormality (PA)Abnormality of pelvic girdle bone morphology0.001099InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the synovia0.02471InformativeInherited
Phenotypic Abnormality (PA)Hearing impairment0.02492InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the voice0.02629InformativeInherited
Phenotypic Abnormality (PA)Joint dislocation0.05747InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lower limb joint0.07129InformativeInherited
Phenotypic Abnormality (PA)Abnormal upper limb bone morphology0.07459InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the outer ear0.07666InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.1719InformativeInherited
Phenotypic Abnormality (PA)Abnormal ureter physiology0.00004816Highly InformativeDirect
Phenotypic Abnormality (PA)Posteriorly rotated ears0.0004169Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal aggressive, impulsive or violent behavior0.0005643Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the pinna0.000592Highly InformativeDirect
Phenotypic Abnormality (PA)Feeding difficulties0.0008598Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the ulna0.003209Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cerebral ventricles0.003941Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the radius0.00842Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urethra0.01891Highly InformativeInherited
Phenotypic Abnormality (PA)Synostosis of joints0.03678Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the penis0.4471Highly 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 phenotype0.3247Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.3506Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.3734Least InformativeInherited
Mammalian Phenotype (MP)embryo phenotype0.0008824Moderately InformativeDirect
Mammalian Phenotype (MP)neoplasm0.1999Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology/development0.2348Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood cell morphology0.3222Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.9599Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal B cell differentiation0.0008928InformativeDirect
Mammalian Phenotype (MP)increased hemolymphoid system tumor incidence0.001475InformativeInherited

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 variant0.000003172Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.006094Least InformativeInherited
Worm Phenotype (WP)cell development variant0.3121Least InformativeInherited
Worm Phenotype (WP)pattern of transgene expression variant0.0000000001947Moderately InformativeDirect
Worm Phenotype (WP)metabolic pathway variant0.001428Moderately InformativeInherited
Worm Phenotype (WP)protein expression variant0.002544Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.009862Moderately InformativeInherited
Worm Phenotype (WP)reproductive system development variant0.03977Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.1326Moderately InformativeInherited
Worm Phenotype (WP)sterile progeny0.4236Moderately InformativeInherited
Worm Phenotype (WP)apoptosis variant0.7664Moderately InformativeInherited
Worm Phenotype (WP)life span variant0InformativeDirect
Worm Phenotype (WP)protein modification variant0.000000001801InformativeDirect
Worm Phenotype (WP)maintenance of gene silencing variant0.0004144InformativeDirect
Worm Phenotype (WP)cell fate specification variant0.001369InformativeInherited
Worm Phenotype (WP)vulva development variant0.008797InformativeInherited
Worm Phenotype (WP)protein methylation variant0Highly InformativeDirect
Worm Phenotype (WP)transgenerational loss of fertility0.00000000003577Highly InformativeDirect
Worm Phenotype (WP)apoptosis increased0.0000003777Highly InformativeDirect
Worm Phenotype (WP)shortened life span0.00000122Highly InformativeDirect
Worm Phenotype (WP)RNAi response variant0.00001077Highly InformativeDirect
Worm Phenotype (WP)spontaneous mutation rate increased0.00002386Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant0.016Highly InformativeInherited
Worm Phenotype (WP)cell number decreased0.06002Highly InformativeInherited
Worm Phenotype (WP)antibody staining variant0.2532Highly 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 variegation0.000000003408InformativeDirect
Fly Phenotype (FP)suppressor of variegation0.0000000007583Highly InformativeDirect
Fly Phenotype (FP)non-suppressor of variegation0.00002654Highly InformativeDirect
Fly Phenotype (FP)homeotic0.0001223Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organism subdivision0.3491Least InformativeInherited
Fly Anatomy (FA)adult0.3497Least InformativeInherited
Fly Anatomy (FA)organ system subdivision0.4209Least InformativeInherited
Fly Anatomy (FA)thorax0.126Moderately InformativeInherited
Fly Anatomy (FA)appendage0.4516Moderately InformativeInherited
Fly Anatomy (FA)region of integument0.4874Moderately InformativeInherited
Fly Anatomy (FA)adult tagma0.5456Moderately InformativeInherited
Fly Anatomy (FA)adult integumentary system0.5824Moderately InformativeInherited
Fly Anatomy (FA)adult segment0.7579Moderately InformativeInherited
Fly Anatomy (FA)leg0.0392InformativeInherited
Fly Anatomy (FA)adult metathoracic segment0.002223Highly InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.001427Least InformativeInherited
Xenopus ANatomical entity (XAN)tissue0.03878Least InformativeInherited

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

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 ]