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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 disease0.0007616Least InformativeDirect
Disease Ontology (DO)disease of mental health0.00000000000003045Moderately InformativeDirect
Disease Ontology (DO)brain disease0.001353Moderately InformativeInherited
Disease Ontology (DO)genetic disease0.3696Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease1Moderately InformativeInherited
Disease Ontology (DO)substance dependence0.00000000000005049InformativeDirect
Disease Ontology (DO)schizophrenia0.00005885InformativeDirect
Disease Ontology (DO)focal epilepsy0.078InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.1294InformativeInherited
Disease Ontology (DO)autistic disorder0.00000001843Highly InformativeDirect
Disease Ontology (DO)cocaine dependence0.000001022Highly InformativeDirect
Disease Ontology (DO)early myoclonic encephalopathy0.00001144Highly InformativeDirect
Disease Ontology (DO)Lewy body dementia0.00004492Highly InformativeDirect
Disease Ontology (DO)Angelman syndrome0.00008903Highly InformativeDirect
Disease Ontology (DO)frontal lobe epilepsy0.0007229Highly 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 inheritance0.000232Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.03883Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.06976Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.1496Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.3363Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.5789Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.8096Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.9712Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9801Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis1Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.03073Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.07058Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.1211Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.1274Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1784Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.398Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.4118Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal skeletal muscle morphology0.6657Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.7209Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.8378Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the shoulder girdle musculature0.001711InformativeInherited
Phenotypic Abnormality (PA)Fatigable weakness0.008732InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.01915InformativeInherited
Phenotypic Abnormality (PA)Encephalopathy0.02167InformativeInherited
Phenotypic Abnormality (PA)Abnormality of eye movement0.02262InformativeInherited
Phenotypic Abnormality (PA)Abnormality of prenatal development or birth0.09846InformativeInherited
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0.1009InformativeInherited
Phenotypic Abnormality (PA)Impairment in personality functioning0.1168InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.1171InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.1733InformativeInherited
Phenotypic Abnormality (PA)Scoliosis0.1742InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.2241InformativeInherited
Phenotypic Abnormality (PA)Seizures0.2265InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.2399InformativeInherited
Phenotypic Abnormality (PA)Involuntary movements0.4341InformativeInherited
Phenotypic Abnormality (PA)Decreased miniature endplate potentials0.000000242Highly InformativeDirect
Phenotypic Abnormality (PA)Orthopnea0.000000242Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of neck muscles0.000000242Highly InformativeDirect
Phenotypic Abnormality (PA)Multiple pterygia0.0000002898Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002898Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased size of nerve terminals0.0000003561Highly InformativeDirect
Phenotypic Abnormality (PA)Thoracic kyphoscoliosis0.0000009673Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of long finger extensor muscles0.00000129Highly InformativeDirect
Phenotypic Abnormality (PA)Triceps weakness0.00000129Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of jaw muscles0.000001691Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of the intrinsic hand muscles0.00000218Highly InformativeDirect
Phenotypic Abnormality (PA)Uncontrolled eye movements0.000002492Highly InformativeDirect
Phenotypic Abnormality (PA)Ankle weakness0.000002976Highly InformativeDirect
Phenotypic Abnormality (PA)EMG: decremental response of compound muscle action potential to repetitive nerve stimulation0.000003499Highly InformativeDirect
Phenotypic Abnormality (PA)Jerky head movements0.00000644Highly InformativeDirect
Phenotypic Abnormality (PA)Epileptic encephalopathy0.0001044Highly InformativeDirect
Phenotypic Abnormality (PA)Low self esteem0.0001341Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased fetal movement0.0001362Highly InformativeDirect
Phenotypic Abnormality (PA)Reduced vital capacity0.0001801Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.0001919Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.000205Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.0005273Highly InformativeDirect
Phenotypic Abnormality (PA)Exertional dyspnea0.0008787Highly InformativeDirect
Phenotypic Abnormality (PA)Cystic hygroma0.000953Highly InformativeDirect
Phenotypic Abnormality (PA)Neck muscle weakness0.001188Highly InformativeInherited
Phenotypic Abnormality (PA)Limb-girdle muscle weakness0.002129Highly InformativeInherited
Phenotypic Abnormality (PA)Stereotypy0.04163Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cervical spine0.1362Highly InformativeInherited
Phenotypic Abnormality (PA)Generalized-onset seizure0.1393Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.0000000003588Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0003908Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.013Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.05701Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.09049Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.3008Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.3452Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4787Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6845Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.7472Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.000000001867InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.0009511InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001206InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001271InformativeInherited
Mammalian Phenotype (MP)seizures0.001583InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004548InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01144InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.02139InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.0334InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2967InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.3025InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.5409InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.6954InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.7803InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.00000000306Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005678Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006309Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.000002912Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006328Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008854Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001885Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001885Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003304Highly InformativeDirect
Mammalian Phenotype (MP)decreased chemically-elicited antinociception0.000103Highly 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 morphology0.0002031Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urothelium morphology0.0002358Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0004925Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008838Highly InformativeDirect
Mammalian Phenotype (MP)abnormal iris morphology0.01176Highly InformativeInherited
Mammalian Phenotype (MP)renal/urinary system inflammation0.0135Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron innervation pattern0.01425Highly InformativeInherited
Mammalian Phenotype (MP)abnormal associative learning0.02482Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.09007Highly InformativeInherited
Mammalian Phenotype (MP)impaired learning0.1018Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.2655Highly InformativeInherited
Mammalian Phenotype (MP)abnormal reflex0.6809Highly 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 variant0.000000000003434Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.000000007216Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001074Least InformativeDirect
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)endocytic transport variant0Moderately InformativeDirect
Worm Phenotype (WP)drug response variant0.00000002132Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.00000754Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0002278Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.0002413Moderately InformativeDirect
Worm Phenotype (WP)neuron development variant0.06519Moderately InformativeInherited
Worm Phenotype (WP)organism stress response variant1Moderately InformativeInherited
Worm Phenotype (WP)coelomic system physiology variant0InformativeDirect
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body posture variant0.0000000000007493InformativeDirect
Worm Phenotype (WP)chemical resistant0.0000000002494InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.0000000002721InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.000000002998InformativeDirect
Worm Phenotype (WP)localized movement variant0.000000007699InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.0000004261InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.0000005328InformativeDirect
Worm Phenotype (WP)nervous system physiology variant0.0001116InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.0004602InformativeDirect
Worm Phenotype (WP)pesticide response variant0.001861InformativeInherited
Worm Phenotype (WP)organism temperature response variant0.01435InformativeInherited
Worm Phenotype (WP)directionality variant0.03066InformativeInherited
Worm Phenotype (WP)nicotine response variant0.1552InformativeInherited
Worm Phenotype (WP)odorant chemosensory response variant0.1594InformativeInherited
Worm Phenotype (WP)metal response variant0.2386InformativeInherited
Worm Phenotype (WP)locomotion reduced0.3087InformativeInherited
Worm Phenotype (WP)chemotaxis variant0.7259InformativeInherited
Worm Phenotype (WP)small0.9341InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)coelomocyte endocytosis defective0Highly InformativeDirect
Worm Phenotype (WP)AWC odorant chemotaxis variant0Highly InformativeDirect
Worm Phenotype (WP)antihelmintic response variant0.00000007624Highly InformativeDirect
Worm Phenotype (WP)synaptic transmission variant0.000001073Highly InformativeDirect
Worm Phenotype (WP)fat0.000005031Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000005678Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.0000167Highly InformativeDirect
Worm Phenotype (WP)short0.00002241Highly InformativeDirect
Worm Phenotype (WP)thermotaxis variant0.00003452Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00004537Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.0005898Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.07913Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)chemical resistant0.000001151Highly InformativeDirect
Fly Phenotype (FP)phototaxis defective0.00009584Highly 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)trunk musculature0.0003494InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.00008588Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)late tailbud stage0.3758InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0000137Highly InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 400.0008513Highly 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 ]