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Nicotinic receptor ligand binding domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Nicotinic receptor ligand binding domain-like [ 63711]
Superfamily:   Nicotinic receptor ligand binding domain-like [ 63712]
Families:   Nicotinic receptor ligand binding domain-like [ 63713]


Superfamily statistics
Genomes (211) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 7,983 0 4
Proteins 7,792 0 4


Functional annotation
General category Regulation
Detailed category Signal transduction

Document:
Function annotation of SCOP domain superfamilies

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.0007588Least InformativeDirect
Disease Ontology (DO)disease of mental health0.00000000000002982Moderately InformativeDirect
Disease Ontology (DO)brain disease0.00133Moderately InformativeInherited
Disease Ontology (DO)genetic disease0.3693Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease1Moderately InformativeInherited
Disease Ontology (DO)substance dependence0.00000000000004945InformativeDirect
Disease Ontology (DO)schizophrenia0.00005809InformativeDirect
Disease Ontology (DO)focal epilepsy0.07772InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.1292InformativeInherited
Disease Ontology (DO)autistic disorder0.00000001801Highly InformativeDirect
Disease Ontology (DO)cocaine dependence0.000001008Highly InformativeDirect
Disease Ontology (DO)early myoclonic encephalopathy0.00001126Highly InformativeDirect
Disease Ontology (DO)Lewy body dementia0.00004432Highly InformativeDirect
Disease Ontology (DO)Angelman syndrome0.00008793Highly InformativeDirect
Disease Ontology (DO)frontal lobe epilepsy0.0007156Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Autosomal dominant inheritance0.0003568Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.01462Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.6089Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.6845Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.8179Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.9915Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.08464Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.08991Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.4435Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.5401Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.5613Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle morphology0.6273Moderately InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.1113InformativeInherited
Phenotypic Abnormality (PA)Seizures0.1257InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.1672InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the curvature of the vertebral column0.3661InformativeInherited
Phenotypic Abnormality (PA)Multiple pterygia0.0000002625Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002625Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal cervical curvature0.0000006203Highly InformativeDirect
Phenotypic Abnormality (PA)Atypical absence seizures0.00001718Highly InformativeDirect
Phenotypic Abnormality (PA)Atonic seizures0.00004899Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.00006144Highly InformativeDirect
Phenotypic Abnormality (PA)Easy fatigability0.00007441Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.0001099Highly InformativeDirect
Phenotypic Abnormality (PA)Diminished movement0.0002199Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.0000000003569Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0004004Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.01295Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.05772Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.08996Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.3012Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.3448Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4783Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6834Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.7478Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.000000001886InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0009733InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001218InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001279InformativeInherited
Mammalian Phenotype (MP)seizures0.001591InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004562InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01149InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.02146InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.03347InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.297InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.3031InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.5409InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.6945InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.000000003053Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005695Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006328Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.00000292Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006349Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008903Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001896Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001896Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003319Highly InformativeDirect
Mammalian Phenotype (MP)decreased chemically-elicited antinociception0.0001033Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nicotine-mediated receptor currents0.0001311Highly InformativeDirect
Mammalian Phenotype (MP)abnormal inhibitory postsynaptic currents0.0001322Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear inner hair cell morphology0.0002039Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urothelium morphology0.0002361Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0004935Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008895Highly InformativeDirect
Mammalian Phenotype (MP)abnormal iris morphology0.01178Highly InformativeInherited
Mammalian Phenotype (MP)renal/urinary system inflammation0.01352Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron innervation pattern0.01422Highly InformativeInherited
Mammalian Phenotype (MP)abnormal associative learning0.02454Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.09028Highly InformativeInherited
Mammalian Phenotype (MP)impaired learning0.1014Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.267Highly InformativeInherited
Mammalian Phenotype (MP)abnormal reflex0.6831Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0.0000000000003208Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000002459Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001819Least InformativeDirect
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.0000000003238Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.0001204Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0001398Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body posture variant0.0000000000002181InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.00000000004634InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.0000000009734InformativeDirect
Worm Phenotype (WP)localized movement variant0.000000001039InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.00000004206InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.00000005937InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.00000135InformativeDirect
Worm Phenotype (WP)pesticide response variant0.01269InformativeInherited
Worm Phenotype (WP)locomotion reduced0.1388InformativeInherited
Worm Phenotype (WP)body width variant0.3134InformativeInherited
Worm Phenotype (WP)metal response variant0.3233InformativeInherited
Worm Phenotype (WP)nicotine response variant0.52InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)chemotaxis variant1InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0Highly InformativeDirect
Worm Phenotype (WP)nervous system physiology variant0.000002844Highly InformativeDirect
Worm Phenotype (WP)fat0.000004826Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.000007317Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000008211Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00002778Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.0001575Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.0003098Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.0004728Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.08128Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)circadian rhythm defective0.00004138InformativeDirect
Fly Phenotype (FP)chemical resistant0.000001398Highly InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)cell0.08528Least InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.00001737Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)late tailbud stage0.3221InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0000008931Highly InformativeDirect

Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentCell projection0.00000000000002113Moderately InformativeDirect
Cellular componentSynapse0InformativeDirect
Cellular componentPostsynaptic cell membrane0Highly InformativeDirect
DiseaseDisease mutation0.0000000000105Least InformativeDirect
DiseaseEpilepsy0.000000008684InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionChloride0InformativeDirect
Molecular functionChloride channel0Highly InformativeDirect
Post-translational modificationReceptor0Moderately InformativeDirect
Post-translational modificationIon channel0InformativeDirect
Post-translational modificationLigand-gated ion channel0Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationPalmitate0.0000000002754Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR006202 SSF63712 Protein matches
Abstract

This entry presents the extracellular ligand binding domain of these ion channels. This domain forms a pentameric arrangement in the known structure.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) ]

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 1 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 Nicotinic receptor ligand binding domain-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 1 hidden Markov models representing the Nicotinic receptor ligand binding domain-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 · InterPro annotation · PDBeMotif links · Functional annotation · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]