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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 inheritance0.0002483Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.03658Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of limbs0.06495Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.1448Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.3202Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.5675Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.8992Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.9684Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system morphology0.9816Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis1Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal eye physiology0.02809Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.06485Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.1197Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.1201Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.1705Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.3818Moderately InformativeInherited
Phenotypic Abnormality (PA)Behavioral abnormality0.4005Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.7147Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal skeletal muscle morphology0.8116Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper limb0.8388Moderately InformativeInherited
Phenotypic Abnormality (PA)Fatigable weakness0.003634InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.01735InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature of the limbs0.01927InformativeInherited
Phenotypic Abnormality (PA)Abnormality of eye movement0.02254InformativeInherited
Phenotypic Abnormality (PA)Encephalopathy0.06238InformativeInherited
Phenotypic Abnormality (PA)Abnormal nervous system electrophysiology0.09573InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the thorax0.11InformativeInherited
Phenotypic Abnormality (PA)Impairment in personality functioning0.116InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.1442InformativeInherited
Phenotypic Abnormality (PA)Scoliosis0.167InformativeInherited
Phenotypic Abnormality (PA)Abnormality of temperature regulation0.1735InformativeInherited
Phenotypic Abnormality (PA)Seizures0.2141InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.2396InformativeInherited
Phenotypic Abnormality (PA)Involuntary movements0.425InformativeInherited
Phenotypic Abnormality (PA)Abnormality of vision0.609InformativeInherited
Phenotypic Abnormality (PA)Decreased miniature endplate potentials0.0000002515Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of neck muscles0.0000002515Highly InformativeDirect
Phenotypic Abnormality (PA)Multiple pterygia0.0000002963Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002963Highly InformativeDirect
Phenotypic Abnormality (PA)Decreased size of nerve terminals0.0000003698Highly InformativeDirect
Phenotypic Abnormality (PA)Thoracic kyphoscoliosis0.000000738Highly InformativeDirect
Phenotypic Abnormality (PA)Ankle weakness0.0000009909Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of long finger extensor muscles0.000001335Highly InformativeDirect
Phenotypic Abnormality (PA)Triceps weakness0.000001335Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of jaw muscles0.000001751Highly InformativeDirect
Phenotypic Abnormality (PA)Weakness of the intrinsic hand muscles0.00000226Highly InformativeDirect
Phenotypic Abnormality (PA)Uncontrolled eye movements0.000002544Highly InformativeDirect
Phenotypic Abnormality (PA)EMG: decremental response of compound muscle action potential to repetitive nerve stimulation0.000003625Highly InformativeDirect
Phenotypic Abnormality (PA)Jerky head movements0.000006591Highly InformativeDirect
Phenotypic Abnormality (PA)Low self esteem0.0001448Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.0001975Highly InformativeDirect
Phenotypic Abnormality (PA)Reduced vital capacity0.0001998Highly InformativeDirect
Phenotypic Abnormality (PA)Fatigable weakness of respiratory muscles0.000214Highly InformativeDirect
Phenotypic Abnormality (PA)Neck muscle weakness0.0004384Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.0005437Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of binocular vision0.0007147Highly InformativeDirect
Phenotypic Abnormality (PA)Limb-girdle muscle weakness0.0009014Highly InformativeDirect
Phenotypic Abnormality (PA)Cystic hygroma0.000934Highly InformativeDirect
Phenotypic Abnormality (PA)Stereotypy0.03782Highly InformativeInherited
Phenotypic Abnormality (PA)Generalized-onset seizure0.1365Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cervical spine0.1374Highly InformativeInherited
Phenotypic Abnormality (PA)Dyspnea0.3759Highly 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 phenotype0.0000000003602Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0003905Moderately 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 morphology0.09048Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.2998Moderately InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.3452Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4779Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.684Moderately 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 xenobiotic0.00000000188InformativeDirect
Mammalian Phenotype (MP)abnormal learning/memory/conditioning0.000952InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001206InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001271InformativeInherited
Mammalian Phenotype (MP)seizures0.001586InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004548InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01143InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.02141InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.03341InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2967InformativeInherited
Mammalian Phenotype (MP)abnormal emotion/affect behavior0.3028InformativeInherited
Mammalian Phenotype (MP)abnormal sensory neuron morphology0.5409InformativeInherited
Mammalian Phenotype (MP)abnormal hearing physiology0.6954InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.7802InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.000000003056Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005685Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006324Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.000002921Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006337Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008847Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001887Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001887Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003309Highly InformativeDirect
Mammalian Phenotype (MP)decreased chemically-elicited antinociception0.0001031Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nicotine-mediated receptor currents0.000131Highly 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 morphology0.0004929Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008844Highly 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 pattern0.01424Highly InformativeInherited
Mammalian Phenotype (MP)abnormal associative learning0.02482Highly InformativeInherited
Mammalian Phenotype (MP)abnormal eyelid morphology0.0901Highly InformativeInherited
Mammalian Phenotype (MP)impaired learning0.1018Highly InformativeInherited
Mammalian Phenotype (MP)impaired hearing0.2654Highly InformativeInherited
Mammalian Phenotype (MP)abnormal reflex0.681Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)blast cell physiology variant0.0000000000009294Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.0000000000009468Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000008275Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.00267Least InformativeInherited
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)drug response variant0.0000005954Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.000001068Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.00004798Moderately InformativeDirect
Worm Phenotype (WP)body region morphology variant0.004172Moderately InformativeInherited
Worm Phenotype (WP)organism segment morphology variant0.004172Moderately InformativeInherited
Worm Phenotype (WP)developmental morphology variant0.004213Moderately InformativeInherited
Worm Phenotype (WP)adult body morphology variant0.004254Moderately InformativeInherited
Worm Phenotype (WP)body morphology variant0.005332Moderately InformativeInherited
Worm Phenotype (WP)neuron development variant0.03885Moderately InformativeInherited
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body bend variant0.00000000000001687InformativeDirect
Worm Phenotype (WP)body posture variant0.00000000000002839InformativeDirect
Worm Phenotype (WP)localized movement variant0.00000000007764InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.0000000001066InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.000000007988InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.00000005642InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.000001484InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.00009551InformativeDirect
Worm Phenotype (WP)positive chemotaxis variant0.001882InformativeInherited
Worm Phenotype (WP)pesticide response variant0.00358InformativeInherited
Worm Phenotype (WP)directionality variant0.01819InformativeInherited
Worm Phenotype (WP)locomotion reduced0.1081InformativeInherited
Worm Phenotype (WP)metal response variant0.3235InformativeInherited
Worm Phenotype (WP)nicotine response variant0.4773InformativeInherited
Worm Phenotype (WP)small0.9341InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0Highly InformativeDirect
Worm Phenotype (WP)synaptic transmission variant0.00000001488Highly InformativeDirect
Worm Phenotype (WP)antihelmintic response variant0.000000134Highly InformativeDirect
Worm Phenotype (WP)fat0.000004315Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000007629Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.00001515Highly InformativeDirect
Worm Phenotype (WP)short0.00001983Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00002749Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.000558Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.07968Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)chemical resistant0.000001076Highly InformativeDirect
Fly Phenotype (FP)phototaxis defective0.00008743Highly 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)cell0.06176Least InformativeInherited
Zebrafish Anatomy (ZA)electrically active cell0.000291Moderately 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 stage0.00008432Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)late tailbud stage0.3743InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.00001207Highly InformativeDirect
Xenopus DEvelopment stage (XDE)NF stage 400.0008433Highly 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 ]