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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 disease0.0007677Least InformativeDirect
Disease Ontology (DO)disease of mental health0.00000000000003045Moderately InformativeDirect
Disease Ontology (DO)brain disease0.001337Moderately InformativeInherited
Disease Ontology (DO)genetic disease0.3694Moderately InformativeInherited
Disease Ontology (DO)neurodegenerative disease1Moderately InformativeInherited
Disease Ontology (DO)substance dependence0.00000000000005049InformativeDirect
Disease Ontology (DO)schizophrenia0.00005879InformativeDirect
Disease Ontology (DO)focal epilepsy0.07803InformativeInherited
Disease Ontology (DO)developmental disorder of mental health0.1294InformativeInherited
Disease Ontology (DO)autistic disorder0.00000001839Highly InformativeDirect
Disease Ontology (DO)cocaine dependence0.000001022Highly InformativeDirect
Disease Ontology (DO)early myoclonic encephalopathy0.00001142Highly InformativeDirect
Disease Ontology (DO)Lewy body dementia0.00004492Highly InformativeDirect
Disease Ontology (DO)Angelman syndrome0.00008911Highly InformativeDirect
Disease Ontology (DO)frontal lobe epilepsy0.0007224Highly 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 inheritance0.0002016Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.01787Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.08563Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.08843Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.2628Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.6194Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.838Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.9419Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9859Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis1Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.01445Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.02947Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1351Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.1536Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.3286Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal peripheral nervous system morphology0.3894Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.4098Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.6564Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal muscle morphology0.6858Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.6992Moderately InformativeInherited
Phenotypic Abnormality (PA)Epileptic encephalopathy0.0008198InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness0.004094InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.009458InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the neck0.02036InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature of the limbs0.02535InformativeInherited
Phenotypic Abnormality (PA)Abnormality of eye movement0.02636InformativeInherited
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0.05623InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.0816InformativeInherited
Phenotypic Abnormality (PA)Abnormality of prenatal development or birth0.1326InformativeInherited
Phenotypic Abnormality (PA)Scoliosis0.1364InformativeInherited
Phenotypic Abnormality (PA)Seizures0.1417InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.1505InformativeInherited
Phenotypic Abnormality (PA)Impairment in personality functioning0.1515InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.1677InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.2416InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.5497InformativeInherited
Phenotypic Abnormality (PA)Fatigable weakness of neck muscles0.0000001416Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased miniature endplate potentials0.0000002159Highly InformativeDirect
Phenotypic Abnormality (PA)Orthopnea0.0000002159Highly InformativeDirect
Phenotypic Abnormality (PA)Multiple pterygia0.0000002621Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002621Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased size of nerve terminals0.0000003177Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of jaw muscles0.0000004545Highly InformativeDirect
Phenotypic Abnormality (PA)Thoracic kyphoscoliosis0.0000006345Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of long finger extensor muscles0.0000008676Highly InformativeDirect
Phenotypic Abnormality (PA)Triceps weakness0.000001156Highly InformativeDirect
Phenotypic Abnormality (PA)Ankle weakness0.000001488Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of the intrinsic hand muscles0.000001962Highly InformativeDirect
Phenotypic Abnormality (PA)Uncontrolled eye movements0.000002339Highly InformativeDirect
Phenotypic Abnormality (PA)Jerky head movements0.000005863Highly InformativeDirect
Phenotypic Abnormality (PA)Low self esteem0.00001368Highly InformativeDirect
Phenotypic Abnormality (PA)EEG with generalized epileptiform discharges0.00002944Highly InformativeDirect
Phenotypic Abnormality (PA)Absence seizure0.0001107Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.0001511Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.0001729Highly InformativeDirect
Phenotypic Abnormality (PA)Reduced vital capacity0.0002509Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of binocular vision0.0004336Highly InformativeDirect
Phenotypic Abnormality (PA)Neck muscle weakness0.0004941Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.0004966Highly InformativeDirect
Phenotypic Abnormality (PA)Febrile seizures0.0006176Highly InformativeDirect
Phenotypic Abnormality (PA)Exertional dyspnea0.0006218Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased fetal movement0.0008742Highly InformativeDirect
Phenotypic Abnormality (PA)Limb-girdle muscle weakness0.001227Highly InformativeInherited
Phenotypic Abnormality (PA)Stereotypy0.01663Highly InformativeInherited
Phenotypic Abnormality (PA)EMG abnormality0.02914Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cervical spine0.1509Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hip-girdle musculature1Highly 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 phenotype0.0000000003603Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0003911Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.01301Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.05743Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal somatic nervous system morphology0.09047Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.3008Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.3453Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4787Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6846Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.7474Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavioral response to xenobiotic0.000000001856InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.000968InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001211InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001276InformativeInherited
Mammalian Phenotype (MP)seizures0.001585InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004554InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01144InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.0214InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.0334InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2967InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.3022InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.5403InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.6954InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.7802InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.00000000306Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005686Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006317Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.000002916Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006335Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008879Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001891Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001891Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003312Highly InformativeDirect
Mammalian Phenotype (MP)decreased chemically-elicited antinociception0.0001031Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nicotine-mediated receptor currents0.0001312Highly InformativeDirect
Mammalian Phenotype (MP)abnormal inhibitory postsynaptic currents0.0001321Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear inner hair cell morphology0.0002032Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urothelium morphology0.0002358Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0004933Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008873Highly InformativeDirect
Mammalian Phenotype (MP)abnormal iris morphology0.01176Highly InformativeInherited
Mammalian Phenotype (MP)renal/urinary system inflammation0.01351Highly InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron innervation pattern0.01425Highly InformativeInherited
Mammalian Phenotype (MP)abnormal associative learning0.02456Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.09011Highly InformativeInherited
Mammalian Phenotype (MP)impaired learning0.1014Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.2654Highly InformativeInherited
Mammalian Phenotype (MP)abnormal reflex0.6808Highly 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 variant0.0000000000003221Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000004513Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001892Least InformativeDirect
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.0000000003679Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.0001002Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0001263Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body posture variant0.0000000000002044InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.00000000005354InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.000000000862InformativeDirect
Worm Phenotype (WP)localized movement variant0.000000001202InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.00000004789InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.0000001149InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.000001079InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.0002167InformativeDirect
Worm Phenotype (WP)pesticide response variant0.00144InformativeInherited
Worm Phenotype (WP)positive chemotaxis variant0.001786InformativeInherited
Worm Phenotype (WP)locomotion reduced0.1308InformativeInherited
Worm Phenotype (WP)body width variant0.2944InformativeInherited
Worm Phenotype (WP)metal response variant0.3188InformativeInherited
Worm Phenotype (WP)nicotine response variant0.5138InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0Highly InformativeDirect
Worm Phenotype (WP)synaptic transmission variant0.00000001617Highly InformativeDirect
Worm Phenotype (WP)fat0.000005718Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000007095Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.00001357Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00002878Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.0005592Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.0006028Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.08174Highly 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 defective0.00006744InformativeDirect
Fly Phenotype (FP)chemical resistant0.000001866Highly InformativeDirect
Fly Phenotype (FP)phototaxis defective0.0001147Highly 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)cell0.06191Least InformativeInherited
Zebrafish Anatomy (ZA)electrically active cell0.0002912Moderately 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 stage0.00008112Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)late tailbud stage0.3714InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.00001134Highly InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 400.0008699Highly 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 ]