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 disease0.5475Least InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.003283Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.1282Moderately InformativeInherited
Disease Ontology (DO)syndrome0.2368Moderately InformativeInherited
Disease Ontology (DO)connective tissue disease0.4072Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8563Moderately InformativeInherited
Disease Ontology (DO)inflammatory bowel disease0.00001198InformativeDirect
Disease Ontology (DO)allergic rhinitis0.00002493InformativeDirect
Disease Ontology (DO)periodontal disease0.001356InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type IV disease0.003202InformativeInherited
Disease Ontology (DO)irritable bowel syndrome0.000007768Highly InformativeDirect
Disease Ontology (DO)uveitis0.00007173Highly InformativeDirect
Disease Ontology (DO)sarcoidosis0.0001682Highly 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/homeostasis0.104Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.1866Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.2783Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.4131Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.5706Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5962Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.003067Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology0.1614Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.1692Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.1831Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.2527Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye morphology0.3173Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.6019Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.7158Moderately InformativeInherited
Phenotypic Abnormality (PA)CNS infection0.0001055InformativeDirect
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.007189InformativeInherited
Phenotypic Abnormality (PA)Abnormal uvea morphology0.01204InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral mucosa morphology0.05164InformativeInherited
Phenotypic Abnormality (PA)Constitutional symptom0.07118InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.1092InformativeInherited
Phenotypic Abnormality (PA)Localized skin lesion0.2036InformativeInherited
Phenotypic Abnormality (PA)Abnormal inflammatory response0.2714InformativeInherited
Phenotypic Abnormality (PA)Retrobulbar optic neuritis0.0000001659Highly InformativeDirect
Phenotypic Abnormality (PA)Recurrent aphthous stomatitis0.00006483Highly InformativeDirect
Phenotypic Abnormality (PA)Papule0.00006874Highly InformativeDirect
Phenotypic Abnormality (PA)Arthralgia0.00009095Highly InformativeDirect
Phenotypic Abnormality (PA)Lymphadenopathy0.0001567Highly InformativeDirect
Phenotypic Abnormality (PA)Uveitis0.000187Highly InformativeDirect
Phenotypic Abnormality (PA)Photophobia0.0004403Highly InformativeDirect
Phenotypic Abnormality (PA)Fever0.0006113Highly InformativeDirect
Phenotypic Abnormality (PA)Vasculitis0.0007096Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal conjunctiva morphology0.0007262Highly InformativeDirect
Phenotypic Abnormality (PA)Elevated C-reactive protein level0.0009026Highly 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 phenotype0.06221Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.0005132Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal inflammatory response0.1073Moderately InformativeInherited
Mammalian Phenotype (MP)increased susceptibility to infection0.0009886InformativeDirect
Mammalian Phenotype (MP)abnormal intestine physiology0.004277InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.181InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.000001707Highly InformativeDirect
Mammalian Phenotype (MP)abnormal susceptibility to induced colitis0.00001465Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-12b secretion0.0000781Highly 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 variant0.7019Moderately InformativeInherited
Worm Phenotype (WP)resistant to protein aggregation induced paralysis0.0002027Highly 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 direction0.2551InformativeInherited

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)anther0.00008398Highly 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)Lyases0.7623Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases0.7802Least 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 incorporate0.0000004622InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0007024InformativeDirect
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 donors0.00000000000008311Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0.0000000034Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.000006295Highly 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 12 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 12 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 ]