SUPERFAMILY 1.75 HMM library and genome assignments server

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Canonical RBD family

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   RNA-binding domain, RBD [ 54928] (5)
Family:   Canonical RBD [ 54929] (67)


Family statistics
Genomes (488) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 15,913 44,917 131
Proteins 12,849 36,059 123


Enzyme Commission (EC)

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show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Isomerases0.00000001195Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.000006192Least InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.000022Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.01789Least InformativeInherited
Enzyme Commission (EC)Methyltransferases0.0000001778Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.0196Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0.00000000002592InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000002223InformativeDirect
Enzyme Commission (EC)Cis-trans Isomerases1InformativeInherited
Enzyme Commission (EC)Polynucleotide adenylyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease1.746e-16Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)myopathy1InformativeInherited
Disease Ontology (DO)ischemia0.2244Highly InformativeInherited

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Y-linked inheritance0.0002807Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.4067Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.4263Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.4591Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature0.4622Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.6385Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.9123Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0.1944Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.2234Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal skeletal muscle morphology0.2608Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of central motor function0.3158Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating metabolite concentration0.5372Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.5426Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal peripheral nervous system morphology0.6276Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.003163InformativeInherited
Phenotypic Abnormality (PA)Impairment in personality functioning0.008933InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating protein level0.02586InformativeInherited
Phenotypic Abnormality (PA)Muscle weakness0.03576InformativeInherited
Phenotypic Abnormality (PA)Neurological speech impairment0.205InformativeInherited
Phenotypic Abnormality (PA)Abnormality of reproductive system physiology0.427InformativeInherited
Phenotypic Abnormality (PA)Abnormal synaptic transmission at the neuromuscular junction1InformativeInherited
Phenotypic Abnormality (PA)Motor neuron atrophy0.000000246Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of swallowing muscles0.0000004367Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.00001192Highly InformativeDirect
Phenotypic Abnormality (PA)Paralysis0.0001181Highly InformativeDirect
Phenotypic Abnormality (PA)Agitation0.0001462Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased fertility in males0.000176Highly InformativeDirect
Phenotypic Abnormality (PA)Anxiety0.0005479Highly InformativeDirect
Phenotypic Abnormality (PA)Azoospermia0.001239Highly InformativeInherited
Phenotypic Abnormality (PA)Specific learning disability0.01433Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal larynx physiology0.01711Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral physiology0.01889Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.3082Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.9695Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5561Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.8572Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron differentiation0.2625InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0.000000000003364Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.000007147Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0001279Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.001762Least InformativeInherited
Worm Phenotype (WP)larval arrest0.305Least InformativeInherited
Worm Phenotype (WP)progeny variant0.8303Least InformativeInherited
Worm Phenotype (WP)organism environmental stimulus response variant0.9329Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.000000002527Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0001203Moderately InformativeDirect
Worm Phenotype (WP)cell type morphology variant0.01465Moderately InformativeInherited
Worm Phenotype (WP)movement variant0.02219Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.2751Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant0.2778Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.992Moderately InformativeInherited
Worm Phenotype (WP)cell death variant1Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant0.000000004601InformativeDirect
Worm Phenotype (WP)vulva morphology variant0.000001949InformativeDirect
Worm Phenotype (WP)sick0.000002671InformativeDirect
Worm Phenotype (WP)brood size variant0.00003129InformativeDirect
Worm Phenotype (WP)cell number increased0.001242InformativeInherited
Worm Phenotype (WP)egg laying variant0.06377InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.07764InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.2169InformativeInherited
Worm Phenotype (WP)cell proliferation increased0Highly InformativeDirect
Worm Phenotype (WP)intestinal development variant0.0000000000015Highly InformativeDirect
Worm Phenotype (WP)neurite development variant0.000003179Highly InformativeDirect
Worm Phenotype (WP)no induction of antimicrobial peptide expression after infection0.00001947Highly InformativeDirect
Worm Phenotype (WP)sexually dimorphic development variant0.00002557Highly InformativeDirect
Worm Phenotype (WP)developmental morphology variant0.00009629Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant0.0004664Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.01323Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.002976Least InformativeInherited

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

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XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.0000000000001556Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.000000305Least InformativeDirect
Xenopus ANatomical entity (XAN)urogenital system0.00000707Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.0001625Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0.0001729Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.001048Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.01151Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.1475Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.0000000000009336Moderately InformativeDirect
Xenopus ANatomical entity (XAN)testis0.000000131Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.000007931Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.00001159Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.00003505Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.0000372Moderately InformativeDirect
Xenopus ANatomical entity (XAN)tail region0.0002146Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0.000325Moderately InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.002096Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.00353Moderately InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0.03823Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system0.000000000001651InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0.00000003273InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.000005612InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0.0000169InformativeDirect
Xenopus ANatomical entity (XAN)limb0.0001626InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.0002983InformativeDirect
Xenopus ANatomical entity (XAN)tail0.0003253InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.0004546InformativeDirect
Xenopus ANatomical entity (XAN)eye0.0005517InformativeDirect
Xenopus ANatomical entity (XAN)neuroectoderm0.04522InformativeInherited
Xenopus ANatomical entity (XAN)thymus0.000000000001174Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastopore lip0.00001029Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.0003416Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.003453Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage0.00004018Least InformativeDirect
Xenopus DEvelopment stage (XDE)unspecified stage0.00008088Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 660.00003466InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)seed0.0000004931Least InformativeDirect
Plant ANatomical entity (PAN)shoot apex0.000001725Least InformativeDirect
Plant ANatomical entity (PAN)branch0.000004142Least InformativeDirect
Plant ANatomical entity (PAN)phyllome apex0.00003465Least InformativeDirect
Plant ANatomical entity (PAN)stalk0.00004228Least InformativeDirect
Plant ANatomical entity (PAN)gynoecium0.00005758Least InformativeDirect
Plant ANatomical entity (PAN)plant embryo0.00007026Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0.00008464Least InformativeDirect
Plant ANatomical entity (PAN)petal0.0002254Least InformativeDirect
Plant ANatomical entity (PAN)androecium0.0002946Least InformativeDirect
Plant ANatomical entity (PAN)root0.0006504Least InformativeDirect
Plant ANatomical entity (PAN)leaf lamina0.0008448Least InformativeDirect
Plant ANatomical entity (PAN)sepal0.0008994Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0.01814Least InformativeInherited
Plant ANatomical entity (PAN)vascular leaf0.7638Least InformativeInherited
Plant ANatomical entity (PAN)bud0.01703Highly InformativeInherited
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0.000002108Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0.000004237Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0.00001015Least InformativeDirect
Plant structure DEvelopment stage (PDE)4 leaf senescence stage0.0001038Least InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.08217Least InformativeInherited
Enzyme Commission (EC)Transferases0.2117Least InformativeInherited
Enzyme Commission (EC)Isomerases0.0000000001247Moderately InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.00001779Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.00008862Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.02409Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.2346Moderately InformativeInherited
Enzyme Commission (EC)Methyltransferases0.000000498InformativeDirect
Enzyme Commission (EC)Acting on ATP; involved in cellular and subcellular movement0.01106InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.01701InformativeInherited
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000001657Highly InformativeDirect
Enzyme Commission (EC)Cis-trans isomerases1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Post-translational modificationRNA-binding0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 194 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 RNA-binding domain, RBD 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 · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]