SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


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 disease0.5466Least InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.003288Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.1283Moderately InformativeInherited
Disease Ontology (DO)syndrome0.237Moderately InformativeInherited
Disease Ontology (DO)connective tissue disease0.4104Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8562Moderately InformativeInherited
Disease Ontology (DO)inflammatory bowel disease0.00001204InformativeDirect
Disease Ontology (DO)allergic rhinitis0.00002504InformativeDirect
Disease Ontology (DO)periodontal disease0.001356InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type IV disease0.003206InformativeInherited
Disease Ontology (DO)irritable bowel syndrome0.000007773Highly InformativeDirect
Disease Ontology (DO)uveitis0.00007212Highly InformativeDirect
Disease Ontology (DO)sarcoidosis0.000168Highly 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 the digestive system0.05284Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.1336Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.2199Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.2693Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.3749Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.5855Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.7737Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.002174Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.02759Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.07411Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.2972Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.314Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.3543Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.4058Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.4205Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye morphology0.4463Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.6948Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Unusual CNS infection0.000173InformativeDirect
Phenotypic Abnormality (PA)Abnormality of skin physiology0.0003094InformativeDirect
Phenotypic Abnormality (PA)Inflammatory abnormality of the eye0.002022InformativeInherited
Phenotypic Abnormality (PA)Abnormal spleen morphology0.002383InformativeInherited
Phenotypic Abnormality (PA)Abnormal cellular immune system morphology0.005769InformativeInherited
Phenotypic Abnormality (PA)Visceromegaly0.01219InformativeInherited
Phenotypic Abnormality (PA)Abnormal uvea morphology0.01712InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral mucosa morphology0.02224InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.02798InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.1153InformativeInherited
Phenotypic Abnormality (PA)Localized skin lesion0.1345InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.1637InformativeInherited
Phenotypic Abnormality (PA)Retrobulbar optic neuritis0.0000002141Highly InformativeDirect
Phenotypic Abnormality (PA)Recurrent aphthous stomatitis0.000005019Highly InformativeDirect
Phenotypic Abnormality (PA)Meningitis0.00007999Highly InformativeDirect
Phenotypic Abnormality (PA)Uveitis0.0003162Highly InformativeDirect
Phenotypic Abnormality (PA)Papule0.0003439Highly InformativeDirect
Phenotypic Abnormality (PA)Lymphadenopathy0.0004241Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal leukocyte count0.000605Highly InformativeDirect
Phenotypic Abnormality (PA)Photophobia0.0007002Highly InformativeDirect
Phenotypic Abnormality (PA)Inflammation of the large intestine0.01564Highly InformativeInherited
Phenotypic Abnormality (PA)Pain0.04218Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.06209Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.0005171Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal inflammatory response0.107Moderately InformativeInherited
Mammalian Phenotype (MP)increased susceptibility to infection0.0009858InformativeDirect
Mammalian Phenotype (MP)abnormal intestine physiology0.004265InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.1811InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.0000017Highly InformativeDirect
Mammalian Phenotype (MP)abnormal susceptibility to induced colitis0.00001461Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-12b secretion0.00007799Highly 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 variant0.6696Moderately InformativeInherited
Worm Phenotype (WP)resistant to protein aggregation induced paralysis0.0001921Highly 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 direction0.2711InformativeInherited

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)Oxidoreductases0.7154Least InformativeInherited
Enzyme Commission (EC)Lyases0.8131Least 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 incorporate0.0000004799InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0007199InformativeDirect
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 donors0.0000000000001359Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0.000000003491Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.000003206Highly 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 ]