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 variant0.0000000000003867Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0.0008126Least InformativeDirect
Worm Phenotype (WP)cell morphology variant0.002134Least InformativeInherited
Worm Phenotype (WP)organism behavior variant0.008033Least InformativeInherited
Worm Phenotype (WP)cell physiology variant0.01097Least InformativeInherited
Worm Phenotype (WP)blast cell physiology variant0.01097Least InformativeInherited
Worm Phenotype (WP)larval arrest0.3557Least InformativeInherited
Worm Phenotype (WP)sterile progeny0.8953Least InformativeInherited
Worm Phenotype (WP)organ system development variant0.000000008366Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0.0001477Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.007639Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.007639Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.007728Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.007817Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.009283Moderately InformativeInherited
Worm Phenotype (WP)cell type morphology variant0.02007Moderately InformativeInherited
Worm Phenotype (WP)cell homeostasis metabolism variant0.8399Moderately InformativeInherited
Worm Phenotype (WP)germ cell development variant0.9999Moderately InformativeInherited
Worm Phenotype (WP)RNA expression variant0.000000001313InformativeDirect
Worm Phenotype (WP)vulva morphology variant0.000001941InformativeDirect
Worm Phenotype (WP)sick0.00000311InformativeDirect
Worm Phenotype (WP)brood size variant0.00002233InformativeDirect
Worm Phenotype (WP)alimentary system development variant0.0003003InformativeDirect
Worm Phenotype (WP)cell number increased0.001955InformativeInherited
Worm Phenotype (WP)egg laying variant0.02737InformativeInherited
Worm Phenotype (WP)organism pathogen response variant0.05464InformativeInherited
Worm Phenotype (WP)oocyte morphology variant0.1808InformativeInherited
Worm Phenotype (WP)cell proliferation increased0.00000000000000251Highly InformativeDirect
Worm Phenotype (WP)intestinal development variant0.00000000001024Highly InformativeDirect
Worm Phenotype (WP)neurite development variant0.000002101Highly InformativeDirect
Worm Phenotype (WP)no induction of antimicrobial peptide expression after infection0.00001972Highly InformativeDirect
Worm Phenotype (WP)germline proliferation variant0.0005045Highly InformativeDirect
Worm Phenotype (WP)embryonic arrest0.01283Highly 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)embryo0.0000000000002506Least InformativeDirect
Xenopus ANatomical entity (XAN)tissue0.0000003984Least InformativeDirect
Xenopus ANatomical entity (XAN)urogenital system0.000002882Least InformativeDirect
Xenopus ANatomical entity (XAN)anatomical cluster0.00005746Least InformativeDirect
Xenopus ANatomical entity (XAN)nervous system0.0001848Least InformativeDirect
Xenopus ANatomical entity (XAN)trunk0.001273Least InformativeInherited
Xenopus ANatomical entity (XAN)head0.01157Least InformativeInherited
Xenopus ANatomical entity (XAN)cavitated compound organ0.153Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.000000000001967Moderately InformativeDirect
Xenopus ANatomical entity (XAN)testis0.0000002071Moderately InformativeDirect
Xenopus ANatomical entity (XAN)musculoskeletal system0.000006122Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0.00000969Moderately InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0.00001287Moderately InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0.00001445Moderately InformativeDirect
Xenopus ANatomical entity (XAN)sensory system0.0001536Moderately InformativeDirect
Xenopus ANatomical entity (XAN)tail region0.0003016Moderately InformativeDirect
Xenopus ANatomical entity (XAN)viscus0.001247Moderately InformativeInherited
Xenopus ANatomical entity (XAN)brain0.004064Moderately InformativeInherited
Xenopus ANatomical entity (XAN)germ cell0.04108Moderately InformativeInherited
Xenopus ANatomical entity (XAN)anatomical entity in vitro0InformativeDirect
Xenopus ANatomical entity (XAN)endocrine system0.000000000002153InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0.00000004498InformativeDirect
Xenopus ANatomical entity (XAN)pharyngeal region0.00000478InformativeDirect
Xenopus ANatomical entity (XAN)liver and biliary system0.000009484InformativeDirect
Xenopus ANatomical entity (XAN)spinal cord0.0002048InformativeDirect
Xenopus ANatomical entity (XAN)limb0.000244InformativeDirect
Xenopus ANatomical entity (XAN)solid compound organ0.0002525InformativeDirect
Xenopus ANatomical entity (XAN)eye0.0003051InformativeDirect
Xenopus ANatomical entity (XAN)tail0.0004809InformativeDirect
Xenopus ANatomical entity (XAN)skeletal system0.0009317InformativeDirect
Xenopus ANatomical entity (XAN)muscle0.000976InformativeDirect
Xenopus ANatomical entity (XAN)thymus0.000000000001564Highly InformativeDirect
Xenopus ANatomical entity (XAN)blastopore lip0.00001669Highly InformativeDirect
Xenopus ANatomical entity (XAN)hindbrain0.0002564Highly InformativeDirect
Xenopus ANatomical entity (XAN)vegetal hemisphere0.003153Highly 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)Hydrolases0.08252Least InformativeInherited
Enzyme Commission (EC)Transferases0.2173Least InformativeInherited
Enzyme Commission (EC)Isomerases0.0000000001296Moderately InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.00001796Moderately InformativeDirect
Enzyme Commission (EC)Transferring one-carbon groups0.0001027Moderately InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.02417Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.2348Moderately InformativeInherited
Enzyme Commission (EC)Acting on ATP; involved in cellular and subcellular movement0.0111InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.01699InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase0.000000000008285Highly InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0.00000001659Highly 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 ]