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 inheritance0.0001979Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.3793Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature0.3827Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.4519Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the face0.4528Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.653Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.8725Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal skeletal muscle morphology0.2202Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of central motor function0.2628Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.3864Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of higher mental function0.4675Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.4883Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating metabolite concentration0.4907Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal peripheral nervous system morphology0.6299Moderately InformativeInherited
Phenotypic Abnormality (PA)Fatigable weakness0.001881InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper respiratory tract0.002504InformativeInherited
Phenotypic Abnormality (PA)Abnormal circulating protein level0.02188InformativeInherited
Phenotypic Abnormality (PA)Neurological speech impairment0.2664InformativeInherited
Phenotypic Abnormality (PA)Abnormality of reproductive system physiology0.3502InformativeInherited
Phenotypic Abnormality (PA)Motor neuron atrophy0.0000003436Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of swallowing muscles0.0000003759Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.00001032Highly InformativeDirect
Phenotypic Abnormality (PA)Agitation0.0001285Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased fertility in males0.0001581Highly InformativeDirect
Phenotypic Abnormality (PA)Paralysis0.0008215Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of salivation0.00109Highly InformativeInherited
Phenotypic Abnormality (PA)Azoospermia0.001119Highly InformativeInherited
Phenotypic Abnormality (PA)Specific learning disability0.01243Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormal larynx physiology0.01419Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.3085Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.9696Least InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.5564Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.8573Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron differentiation0.2627InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0.0000000000007288Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.001183Least InformativeInherited
Worm Phenotype (WP)cell morphology variant0.002555Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.007476Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant0.007476Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.01016Least InformativeInherited
Worm Phenotype (WP)larval arrest0.3363Least InformativeInherited
Worm Phenotype (WP)sterile progeny0.8793Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.00000001127Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.000147Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.008653Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.008653Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.008752Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.008855Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.01051Moderately InformativeInherited
Worm Phenotype (WP)cell type morphology variant0.02002Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.8767Moderately InformativeInherited
Worm Phenotype (WP)cell death variant0.9058Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant1Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant0.000000001463InformativeDirect
Worm Phenotype (WP)vulva morphology variant0.000002304InformativeDirect
Worm Phenotype (WP)sick0.000003664InformativeDirect
Worm Phenotype (WP)brood size variant0.00002676InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.0002989InformativeDirect
Worm Phenotype (WP)cell number increased0.001948InformativeInherited
Worm Phenotype (WP)egg laying variant0.02711InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.05754InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.1805InformativeInherited
Worm Phenotype (WP)organism stress response variant0.5236InformativeInherited
Worm Phenotype (WP)cell proliferation increased0.000000000000003117Highly InformativeDirect
Worm Phenotype (WP)intestinal development variant0.00000000001201Highly InformativeDirect
Worm Phenotype (WP)neurite development variant0.00000209Highly InformativeDirect
Worm Phenotype (WP)no induction of antimicrobial peptide expression after infection0.00002147Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant0.0004954Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.0135Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)increased mortality0.006396Least 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)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0.000000000001159Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.000001451Least InformativeDirect
Xenopus ANatomical entity (XAN)urogenital system0.0002831Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0.0004409Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.0008246Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.001255Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.01169Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.1526Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.00000000001975Moderately InformativeDirect
Xenopus ANatomical entity (XAN)testis0.0000002111Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.00001166Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.00005534Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.00006745Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.00009459Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0.0002855Moderately InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.001289Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.007468Moderately InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0.04127Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system0.000000000006331InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0.00000001729InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0.00001973InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.00002323InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.0001941InformativeDirect
Xenopus ANatomical entity (XAN)limb0.000248InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.0002566InformativeDirect
Xenopus ANatomical entity (XAN)eye0.0003154InformativeDirect
Xenopus ANatomical entity (XAN)thymus0.000000000001596Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastopore lip0.000005605Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.0008886Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.003193Highly InformativeInherited
Xenopus DEvelopment stage (XDE)post-embryonic stage0.00005522Least InformativeDirect
Xenopus DEvelopment stage (XDE)unspecified stage0.00006514Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 660.00005375InformativeDirect

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)Hydrolases0.08257Least InformativeInherited
Enzyme Commission (EC)Transferases0.2146Least InformativeInherited
Enzyme Commission (EC)Isomerases0.0000000001316Moderately InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.00001778Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.0001039Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.02464Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.2349Moderately InformativeInherited
Enzyme Commission (EC)Acting on ATP; involved in cellular and subcellular movement0.0111InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.01722InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0.00000000000795Highly InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000001684Highly 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 ]