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 disease0.5466Least InformativeInherited
Disease Ontology (DO)gastrointestinal system disease0.003291Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.1283Moderately InformativeInherited
Disease Ontology (DO)syndrome0.2369Moderately InformativeInherited
Disease Ontology (DO)connective tissue disease0.4104Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8563Moderately InformativeInherited
Disease Ontology (DO)inflammatory bowel disease0.00001202InformativeDirect
Disease Ontology (DO)allergic rhinitis0.00002502InformativeDirect
Disease Ontology (DO)periodontal disease0.001355InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type IV disease0.003206InformativeInherited
Disease Ontology (DO)irritable bowel syndrome0.000007774Highly InformativeDirect
Disease Ontology (DO)uveitis0.00007208Highly InformativeDirect
Disease Ontology (DO)sarcoidosis0.0001679Highly 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/homeostasis0.156Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.2719Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.2949Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.4809Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.4967Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.5492Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.6939Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.03867Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.1098Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal anterior eye segment morphology0.114Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of immune system physiology0.1723Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.2187Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal ocular adnexa morphology0.3072Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature0.3547Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal posterior eye segment morphology0.3623Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.3967Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.4563Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.6834Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral cavity morphology1Moderately InformativeInherited
Phenotypic Abnormality (PA)Unusual CNS infection0.0004475InformativeDirect
Phenotypic Abnormality (PA)Inflammatory abnormality of the eye0.002602InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vasculature of the eye0.007527InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.007754InformativeInherited
Phenotypic Abnormality (PA)Abnormal oral mucosa morphology0.0134InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.01492InformativeInherited
Phenotypic Abnormality (PA)Abnormal uvea morphology0.03599InformativeInherited
Phenotypic Abnormality (PA)Abnormal leukocyte morphology0.03787InformativeInherited
Phenotypic Abnormality (PA)Abnormal intestine morphology0.1268InformativeInherited
Phenotypic Abnormality (PA)Localized skin lesion0.1796InformativeInherited
Phenotypic Abnormality (PA)Abnormal cornea morphology0.2493InformativeInherited
Phenotypic Abnormality (PA)Constitutional symptom0.2721InformativeInherited
Phenotypic Abnormality (PA)Recurrent aphthous stomatitis0.0000005173Highly InformativeDirect
Phenotypic Abnormality (PA)Retrobulbar optic neuritis0.0000005291Highly InformativeDirect
Phenotypic Abnormality (PA)Vasculitis0.0001788Highly InformativeDirect
Phenotypic Abnormality (PA)Meningitis0.000206Highly InformativeDirect
Phenotypic Abnormality (PA)Papule0.0002906Highly InformativeDirect
Phenotypic Abnormality (PA)Keratoconjunctivitis sicca0.0003127Highly InformativeDirect
Phenotypic Abnormality (PA)Uveitis0.0003383Highly InformativeDirect
Phenotypic Abnormality (PA)Myalgia0.0004401Highly InformativeDirect
Phenotypic Abnormality (PA)Arthralgia0.0004957Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal erythrocyte sedimentation rate0.0009544Highly InformativeDirect
Phenotypic Abnormality (PA)Inflammation of the large intestine0.008909Highly 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 phenotype0.06211Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.0005053Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal inflammatory response0.1074Moderately InformativeInherited
Mammalian Phenotype (MP)increased susceptibility to infection0.0009824InformativeDirect
Mammalian Phenotype (MP)abnormal intestine physiology0.004257InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.1834InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin-1 beta secretion0.000001702Highly InformativeDirect
Mammalian Phenotype (MP)abnormal susceptibility to induced colitis0.0000146Highly InformativeDirect
Mammalian Phenotype (MP)decreased interleukin-12b secretion0.00007797Highly 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 interaction variant0.6868Moderately InformativeInherited
Worm Phenotype (WP)resistant to protein aggregation induced paralysis0.0001973Highly 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 direction0.2718InformativeInherited

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)Oxidoreductases0.7197Least InformativeInherited
Enzyme Commission (EC)Lyases0.8116Least 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 incorporate0.0000007995InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases0.0007227InformativeDirect
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 donors0.0000000000001466Highly InformativeDirect
Enzyme Commission (EC)Receptor protein-tyrosine kinase0.000000003447Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.000003134Highly 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 ]