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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 disease0.0007588Least 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 inheritance0.000349Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the musculature0.01623Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.7002Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.8288Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.9919Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.09601Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of movement0.2696Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin morphology0.4441Moderately InformativeInherited
Phenotypic Abnormality (PA)Muscle weakness0.5148Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of cardiovascular system morphology0.5568Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the vertebral column0.5659Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle morphology0.6203Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature of the neck0.01396InformativeInherited
Phenotypic Abnormality (PA)Functional motor deficit0.02192InformativeInherited
Phenotypic Abnormality (PA)Regional abnormality of skin0.1115InformativeInherited
Phenotypic Abnormality (PA)Seizures0.1339InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle size0.1721InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the curvature of the vertebral column0.368InformativeInherited
Phenotypic Abnormality (PA)Multiple pterygia0.0000002625Highly InformativeDirect
Phenotypic Abnormality (PA)Amyoplasia0.0000002625Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormal cervical curvature0.0000006217Highly InformativeDirect
Phenotypic Abnormality (PA)Atypical absence seizures0.00001725Highly InformativeDirect
Phenotypic Abnormality (PA)Atonic seizures0.0000492Highly InformativeDirect
Phenotypic Abnormality (PA)Malignant hyperthermia0.00006156Highly InformativeDirect
Phenotypic Abnormality (PA)Hypoplastic heart0.0001103Highly InformativeDirect
Phenotypic Abnormality (PA)Easy fatigability0.0001308Highly InformativeDirect
Phenotypic Abnormality (PA)Diminished movement0.0001351Highly InformativeDirect
Phenotypic Abnormality (PA)Neck muscle weakness0.000981Highly 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 phenotype0.0000000003554Least InformativeDirect
Mammalian Phenotype (MP)immune system phenotype1Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.0004004Moderately InformativeDirect
Mammalian Phenotype (MP)hearing/vestibular/ear phenotype0.01293Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal neuron morphology0.05773Moderately 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 phenotype0.3447Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.4782Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6833Moderately 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/conditioning0.0009725InformativeDirect
Mammalian Phenotype (MP)abnormal innervation0.001218InformativeInherited
Mammalian Phenotype (MP)abnormal cochlear hair cell morphology0.001278InformativeInherited
Mammalian Phenotype (MP)seizures0.001591InformativeInherited
Mammalian Phenotype (MP)abnormal urination0.004559InformativeInherited
Mammalian Phenotype (MP)abnormal touch/ nociception0.01149InformativeInherited
Mammalian Phenotype (MP)abnormal eye physiology0.02145InformativeInherited
Mammalian Phenotype (MP)abnormal uvea morphology0.03346InformativeInherited
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 physiology0.6946InformativeInherited
Mammalian Phenotype (MP)abnormal GABA-mediated receptor currents0.000000003053Highly InformativeDirect
Mammalian Phenotype (MP)urinary incontinence0.00000005692Highly InformativeDirect
Mammalian Phenotype (MP)abnormal type IV spiral ligament fibrocytes0.0000006324Highly InformativeDirect
Mammalian Phenotype (MP)distended urinary bladder0.000002918Highly InformativeDirect
Mammalian Phenotype (MP)abnormal distortion product otoacoustic emission0.000006344Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urinary bladder physiology0.000008897Highly InformativeDirect
Mammalian Phenotype (MP)absence seizures0.00001895Highly InformativeDirect
Mammalian Phenotype (MP)abnormal miniature endplate potential0.00001895Highly InformativeDirect
Mammalian Phenotype (MP)urolithiasis0.00003318Highly 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 morphology0.0002037Highly InformativeDirect
Mammalian Phenotype (MP)abnormal urothelium morphology0.000236Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cochlear outer hair cell morphology0.0004933Highly InformativeDirect
Mammalian Phenotype (MP)decreased fear-related response0.0008889Highly InformativeDirect
Mammalian Phenotype (MP)abnormal iris morphology0.01177Highly 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 morphology0.09025Highly 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 variant0.0000000000003753Least InformativeDirect
Worm Phenotype (WP)organism environmental stimulus response variant0.00000000002672Least InformativeDirect
Worm Phenotype (WP)organism behavior variant0.0001914Least InformativeDirect
Worm Phenotype (WP)cell development variant1Least InformativeInherited
Worm Phenotype (WP)chemical response variant0.0000000003173Moderately InformativeDirect
Worm Phenotype (WP)movement variant0.0001205Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.0001454Moderately InformativeDirect
Worm Phenotype (WP)endocytic transport defect0InformativeDirect
Worm Phenotype (WP)body posture variant0.0000000000002064InformativeDirect
Worm Phenotype (WP)locomotor coordination variant0.00000000004318InformativeDirect
Worm Phenotype (WP)foraging behavior variant0.0000000009242InformativeDirect
Worm Phenotype (WP)localized movement variant0.0000000009888InformativeDirect
Worm Phenotype (WP)electrophysiology variant0.00000004193InformativeDirect
Worm Phenotype (WP)forward locomotion variant0.00000005707InformativeDirect
Worm Phenotype (WP)velocity of movement variant0.000001348InformativeDirect
Worm Phenotype (WP)mechanosensation variant0.0006397InformativeDirect
Worm Phenotype (WP)pesticide response variant0.013InformativeInherited
Worm Phenotype (WP)locomotion reduced0.1387InformativeInherited
Worm Phenotype (WP)body width variant0.3146InformativeInherited
Worm Phenotype (WP)metal response variant0.3211InformativeInherited
Worm Phenotype (WP)nicotine response variant0.5261InformativeInherited
Worm Phenotype (WP)drug resistant1InformativeInherited
Worm Phenotype (WP)chemotaxis variant1InformativeInherited
Worm Phenotype (WP)coelomocyte uptake defective0Highly InformativeDirect
Worm Phenotype (WP)nervous system physiology variant0.000003128Highly InformativeDirect
Worm Phenotype (WP)fat0.000004702Highly InformativeDirect
Worm Phenotype (WP)sodium chloride chemotaxis variant0.000007296Highly InformativeDirect
Worm Phenotype (WP)pausing variant0.000008198Highly InformativeDirect
Worm Phenotype (WP)roaming variant0.00002775Highly InformativeDirect
Worm Phenotype (WP)nose movement variant0.0001573Highly InformativeDirect
Worm Phenotype (WP)isothermal tracking behavior variant0.0003052Highly InformativeDirect
Worm Phenotype (WP)foraging hyperactive0.0004722Highly InformativeDirect
Worm Phenotype (WP)osmotic integrity variant0.07943Highly 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 defective0.00006069InformativeDirect
Fly Phenotype (FP)chemical resistant0.000002013Highly 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)cell0.08487Least InformativeInherited
Zebrafish Anatomy (ZA)electrically active cell0.00094Moderately 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 stage0.00001754Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)tailbud stage0.2425InformativeInherited
Xenopus DEvelopment stage (XDE)NF stage 35 and 360.0000009136Highly 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 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) · Internal database links ]