SUPERFAMILY 1.75 HMM library and genome assignments server

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RNI-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) [ 52046] (3)
Superfamily:   RNI-like [ 52047] (3)
Families:   28-residue LRR [ 52048] (2)
  Rna1p (RanGAP1), N-terminal domain [ 52052]
  Cyclin A/CDK2-associated p19, Skp2 [ 52055]


Superfamily statistics
Genomes (829) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 64,634 154,498 12
Proteins 58,396 140,599 9


Functional annotation
General category Processes_EC
Detailed category Cell adhesion

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0.4543Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0.0000000175Moderately InformativeDirect
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporatio0.000000000000002328Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.5479Least InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.003267Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.1279Moderately InformativeInherited
Disease Ontology (DO)syndrome0.2364Moderately InformativeInherited
Disease Ontology (DO)connective tissue disease0.4071Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8572Moderately InformativeInherited
Disease Ontology (DO)inflammatory bowel disease0.00001183InformativeDirect
Disease Ontology (DO)allergic rhinitis0.00002464InformativeDirect
Disease Ontology (DO)periodontal disease0.001346InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type IV disease0.003183InformativeInherited
Disease Ontology (DO)irritable bowel syndrome0.000007656Highly InformativeDirect
Disease Ontology (DO)uveitis0.00007107Highly InformativeDirect
Disease Ontology (DO)sarcoidosis0.0001667Highly 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 metabolism/homeostasis0.1027Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.1964Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.2664Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.3028Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.3977Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.5537Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.002721Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.1631Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.166Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.2131Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal globe morphology0.305Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.5866Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the orbital region0.6571Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.7103Moderately InformativeInherited
Phenotypic Abnormality (PA)CNS infection0.0001165InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the uvea0.009838InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral mucosa morphology0.05011InformativeInherited
Phenotypic Abnormality (PA)Constitutional symptom0.0721InformativeInherited
Phenotypic Abnormality (PA)Localized skin lesion0.2054InformativeInherited
Phenotypic Abnormality (PA)Increased inflammatory response1InformativeInherited
Phenotypic Abnormality (PA)Retrobulbar optic neuritis0.0000001845Highly InformativeDirect
Phenotypic Abnormality (PA)Recurrent aphthous stomatitis0.000069Highly InformativeDirect
Phenotypic Abnormality (PA)Papule0.0000701Highly InformativeDirect
Phenotypic Abnormality (PA)Arthralgia0.0001039Highly InformativeDirect
Phenotypic Abnormality (PA)Uveitis0.0002317Highly InformativeDirect
Phenotypic Abnormality (PA)Vasculitis0.000611Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal conjunctiva morphology0.0007975Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.06222Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.0005129Moderately InformativeDirect
Mammalian Phenotype (MP)altered susceptibility to infection0.00362Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.1073Moderately InformativeInherited
Mammalian Phenotype (MP)increased susceptibility to infection0.0009884InformativeDirect
Mammalian Phenotype (MP)abnormal intestine physiology0.004276InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.1811InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.000001706Highly InformativeDirect
Mammalian Phenotype (MP)abnormal susceptibility to induced colitis0.00001464Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-12b secretion0.00007804Highly InformativeDirect

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 variant1Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.7041Moderately InformativeInherited
Worm Phenotype (WP)resistant to protein aggregation induced paralysis0.0002013Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)anatomical direction0.2524InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)microsporophyll1Least InformativeInherited
Plant ANatomical entity (PAN)flower1Least InformativeInherited
Plant ANatomical entity (PAN)collective phyllome structure1Least InformativeInherited
Plant ANatomical entity (PAN)sporangium1Least InformativeInherited
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure1Least InformativeInherited
Plant ANatomical entity (PAN)anther0.00008363Highly InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Lyases0.7621Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.7791Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0.0000004221InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0007003InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)With 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors0.00000000000005962Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0.000000003401Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.000005902Highly 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 Anatomy (FA) · 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 6 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 RNI-like 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 6 hidden Markov models representing the RNI-like 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 Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]