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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 24,700 4
Proteins 7,792 24,087 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 disease0.0007632Least InformativeDirect
Disease Ontology (DO)disease of mental health0.00000000000002982Moderately InformativeDirect
Disease Ontology (DO)brain disease0.00133Moderately InformativeInherited
Disease Ontology (DO)genetic disease0.3695Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease1Moderately InformativeInherited
Disease Ontology (DO)substance dependence0.00000000000004945InformativeDirect
Disease Ontology (DO)schizophrenia0.00005829InformativeDirect
Disease Ontology (DO)focal epilepsy0.07777InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.1292InformativeInherited
Disease Ontology (DO)autistic disorder0.00000001808Highly InformativeDirect
Disease Ontology (DO)cocaine dependence0.000001008Highly InformativeDirect
Disease Ontology (DO)early myoclonic encephalopathy0.00001128Highly InformativeDirect
Disease Ontology (DO)Lewy body dementia0.00004439Highly InformativeDirect
Disease Ontology (DO)Angelman syndrome0.00008802Highly InformativeDirect
Disease Ontology (DO)frontal lobe epilepsy0.0007166Highly 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 inheritance0.0003984Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.0115Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.1285Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.4152Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.7541Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.8648Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.8968Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.9989Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9994Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.06468Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.1254Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.1552Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.2185Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.2789Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.3708Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.5996Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.6105Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal muscle morphology0.7083Moderately InformativeInherited
Phenotypic Abnormality (PA)Epileptic encephalopathy0.0006212InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature of the limbs0.03818InformativeInherited
Phenotypic Abnormality (PA)Scoliosis0.1072InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.1114InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.1166InformativeInherited
Phenotypic Abnormality (PA)Seizures0.1309InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.1784InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.1973InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.4185InformativeInherited
Phenotypic Abnormality (PA)Muscle weakness0.5974InformativeInherited
Phenotypic Abnormality (PA)Fatigable weakness of neck muscles0.000000167Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased miniature endplate potentials0.0000002544Highly InformativeDirect
Phenotypic Abnormality (PA)Orthopnea0.0000002544Highly InformativeDirect
Phenotypic Abnormality (PA)Ankle weakness0.0000002544Highly InformativeDirect
Phenotypic Abnormality (PA)Multiple pterygia0.0000002984Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002984Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased size of nerve terminals0.000000372Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of the intrinsic hand muscles0.000000372Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of long finger extensor muscles0.000000372Highly InformativeDirect
Phenotypic Abnormality (PA)Hip flexor weakness0.000000372Highly InformativeDirect
Phenotypic Abnormality (PA)Thoracic kyphoscoliosis0.0000005315Highly InformativeDirect
Phenotypic Abnormality (PA)Triceps weakness0.0000005315Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of jaw muscles0.0000005315Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal cervical curvature0.000001443Highly InformativeDirect
Phenotypic Abnormality (PA)EMG: decremental response of compound muscle action potential to repetitive nerve stimulation0.000002905Highly InformativeDirect
Phenotypic Abnormality (PA)Neck flexor weakness0.000005611Highly InformativeDirect
Phenotypic Abnormality (PA)Shoulder girdle muscle weakness0.00001628Highly InformativeDirect
Phenotypic Abnormality (PA)Reduced vital capacity0.00001777Highly InformativeDirect
Phenotypic Abnormality (PA)Absence seizures0.00007766Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.0001527Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.0001688Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of binocular vision0.0001944Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.000229Highly InformativeDirect
Phenotypic Abnormality (PA)Exertional dyspnea0.0002524Highly InformativeDirect
Phenotypic Abnormality (PA)Cyanosis0.0002776Highly InformativeDirect
Phenotypic Abnormality (PA)Restrictive ventilatory defect0.0003885Highly InformativeDirect
Phenotypic Abnormality (PA)Generalized tonic-clonic seizures0.0008797Highly 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 phenotype0.0000000003581Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0003967Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.01293Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.05746Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.08972Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.3012Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.3446Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4782Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6839Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.7477Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.000000001875InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0009715InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001215InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001277InformativeInherited
Mammalian Phenotype (MP)seizures0.001587InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004558InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01149InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.02144InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.03345InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.297InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.3028InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.5409InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.6945InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.000000003054Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005689Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006322Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.000002916Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006348Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008893Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001893Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001893Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003316Highly InformativeDirect
Mammalian Phenotype (MP)decreased chemically-elicited antinociception0.0001032Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nicotine-mediated receptor currents0.0001311Highly InformativeDirect
Mammalian Phenotype (MP)abnormal inhibitory postsynaptic currents0.0001321Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear inner hair cell morphology0.0002035Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urothelium morphology0.0002358Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0004928Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008881Highly InformativeDirect
Mammalian Phenotype (MP)abnormal iris morphology0.01177Highly InformativeInherited
Mammalian Phenotype (MP)renal/urinary system inflammation0.01351Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron innervation pattern0.01423Highly InformativeInherited
Mammalian Phenotype (MP)abnormal associative learning0.02454Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.09021Highly 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 variant0.0000000000003741Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000002842Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001965Least InformativeDirect
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.0000000002682Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.0001106Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0001446Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body posture variant0.0000000000002093InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.00000000005062InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.0000000009348InformativeDirect
Worm Phenotype (WP)localized movement variant0.000000001053InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.00000004892InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.00000006005InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.000001352InformativeDirect
Worm Phenotype (WP)positive chemotaxis variant0.001381InformativeInherited
Worm Phenotype (WP)pesticide response variant0.01465InformativeInherited
Worm Phenotype (WP)locomotion reduced0.1387InformativeInherited
Worm Phenotype (WP)body width variant0.3086InformativeInherited
Worm Phenotype (WP)metal response variant0.3215InformativeInherited
Worm Phenotype (WP)nicotine response variant0.5307InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0Highly InformativeDirect
Worm Phenotype (WP)nervous system physiology variant0.000003165Highly InformativeDirect
Worm Phenotype (WP)fat0.000004891Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.000007376Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000008207Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.0000278Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.0001575Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.0003066Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.0004733Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.0831Highly 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 defective0.00006248InformativeDirect
Fly Phenotype (FP)chemical resistant0.000001933Highly 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)cell0.08664Least InformativeInherited
Zebrafish Anatomy (ZA)electrically active cell0.0009852Moderately InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.00003263Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)tailbud stage0.1521InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0000006345Highly InformativeDirect

Document: XA 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) ]

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 10 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 10 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) · Internal database links ]