Human Gene CHRNB2 (uc001ffg.3)
  Description: Homo sapiens cholinergic receptor, nicotinic, beta 2 (neuronal) (CHRNB2), mRNA.
RefSeq Summary (NM_000748): Neuronal acetylcholine receptors are homo- or heteropentameric complexes composed of homologous alpha and beta subunits. They belong to a superfamily of ligand-gated ion channels which allow the flow of sodium and potassium across the plasma membrane in response to ligands such as acetylcholine and nicotine. This gene encodes one of several beta subunits. Mutations in this gene are associated with autosomal dominant nocturnal frontal lobe epilepsy. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr1:154,540,257-154,552,353 Size: 12,097 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr1:154,540,521-154,548,408 Size: 7,888 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviews
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:154,540,257-154,552,353)mRNA (may differ from genome)Protein (502 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCHPRDHuman Cortex Gene ExpressionLynxMalacards
MGIneXtProtOMIMPubMedReactomeTreefam
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ACHB2_HUMAN
DESCRIPTION: RecName: Full=Neuronal acetylcholine receptor subunit beta-2; Flags: Precursor;
FUNCTION: After binding acetylcholine, the AChR responds by an extensive change in conformation that affects all subunits and leads to opening of an ion-conducting channel across the plasma membrane.
SUBUNIT: Neuronal AChR is composed of two different types of subunits: alpha and beta. Beta-2 subunit can be combined to alpha- 2, alpha-3 or alpha-4 to give rise to functional receptors. Interacts with RIC3; which is required for proper folding and assembly.
SUBCELLULAR LOCATION: Cell junction, synapse, postsynaptic cell membrane; Multi-pass membrane protein. Cell membrane; Multi-pass membrane protein.
DISEASE: Defects in CHRNB2 are the cause of nocturnal frontal lobe epilepsy type 3 (ENFL3) [MIM:605375]. ENFL3 is an autosomal dominant epilepsy characterized by nocturnal seizures with hyperkinetic automatisms and poorly organized stereotyped movements.
SIMILARITY: Belongs to the ligand-gated ion channel (TC 1.A.9) family. Acetylcholine receptor (TC 1.A.9.1) subfamily. Beta- 2/CHRNB2 sub-subfamily.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/CHRNB2";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CHRNB2
CDC HuGE Published Literature: CHRNB2
Positive Disease Associations: alcohol-related phenotypes nicotine
Related Studies:
  1. alcohol-related phenotypes nicotine
    Ehringer, M. A. et al. 2007, Association of the neuronal nicotinic receptor beta2 subunit gene (CHRNB2) with subjective responses to alcohol and nicotine, Am J Med Genet B Neuropsychiatr Genet 2007. [PubMed 17226798]

-  MalaCards Disease Associations
  MalaCards Gene Search: CHRNB2
Diseases sorted by gene-association score: epilepsy, nocturnal frontal lobe, 3* (1238), chrnb2-related nocturnal frontal lobe epilepsy, autosomal dominant* (100), autosomal dominant nocturnal frontal lobe epilepsy (23), epilepsy, nocturnal frontal lobe, 1 (21), epilepsy (18), autosomal dominant nocturnal frontal lobe epilepsy 2 (18), nicotine dependence, protection against (11), focal epilepsy (8), early onset absence epilepsy (8), idiopathic generalized epilepsy (7), schizophrenia (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.75 RPKM in Brain - Cortex
Total median expression: 96.79 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -118.80264-0.450 Picture PostScript Text
3' UTR -1624.283945-0.412 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006202 - Neur_chan_lig-bd
IPR006201 - Neur_channel
IPR006029 - Neurotrans-gated_channel_TM
IPR018000 - Neurotransmitter_ion_chnl_CS
IPR002394 - Nicotinic_acetylcholine_rcpt

Pfam Domains:
PF02931 - Neurotransmitter-gated ion-channel ligand binding domain
PF02932 - Neurotransmitter-gated ion-channel transmembrane region

SCOP Domains:
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2GVT - Model 2K58 - NMR 2K59 - NMR 2KSR - NMR MuPIT 2LM2 - NMR MuPIT


ModBase Predicted Comparative 3D Structure on P17787
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004888 transmembrane signaling receptor activity
GO:0005216 ion channel activity
GO:0005230 extracellular ligand-gated ion channel activity
GO:0005515 protein binding
GO:0008144 drug binding
GO:0015276 ligand-gated ion channel activity
GO:0015464 acetylcholine receptor activity
GO:0022848 acetylcholine-gated cation-selective channel activity
GO:0042166 acetylcholine binding
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0001508 action potential
GO:0001661 conditioned taste aversion
GO:0001666 response to hypoxia
GO:0006811 ion transport
GO:0006816 calcium ion transport
GO:0006939 smooth muscle contraction
GO:0007165 signal transduction
GO:0007271 synaptic transmission, cholinergic
GO:0007274 neuromuscular synaptic transmission
GO:0007601 visual perception
GO:0007605 sensory perception of sound
GO:0007612 learning
GO:0007613 memory
GO:0007626 locomotory behavior
GO:0008306 associative learning
GO:0008542 visual learning
GO:0014059 regulation of dopamine secretion
GO:0019233 sensory perception of pain
GO:0021562 vestibulocochlear nerve development
GO:0021631 optic nerve morphogenesis
GO:0021771 lateral geniculate nucleus development
GO:0021952 central nervous system projection neuron axonogenesis
GO:0021955 central nervous system neuron axonogenesis
GO:0030890 positive regulation of B cell proliferation
GO:0032225 regulation of synaptic transmission, dopaminergic
GO:0032226 positive regulation of synaptic transmission, dopaminergic
GO:0033603 positive regulation of dopamine secretion
GO:0034220 ion transmembrane transport
GO:0035094 response to nicotine
GO:0035095 behavioral response to nicotine
GO:0035176 social behavior
GO:0042053 regulation of dopamine metabolic process
GO:0042113 B cell activation
GO:0042220 response to cocaine
GO:0042320 regulation of circadian sleep/wake cycle, REM sleep
GO:0042391 regulation of membrane potential
GO:0045188 regulation of circadian sleep/wake cycle, non-REM sleep
GO:0045471 response to ethanol
GO:0045759 negative regulation of action potential
GO:0048814 regulation of dendrite morphogenesis
GO:0050877 neurological system process
GO:0050890 cognition
GO:0051291 protein heterooligomerization
GO:0051899 membrane depolarization
GO:0051963 regulation of synapse assembly
GO:0060078 regulation of postsynaptic membrane potential
GO:0060079 excitatory postsynaptic potential
GO:0060084 synaptic transmission involved in micturition
GO:0095500 acetylcholine receptor signaling pathway
GO:1905144 response to acetylcholine

Cellular Component:
GO:0005886 plasma membrane
GO:0005892 acetylcholine-gated channel complex
GO:0009897 external side of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0044853 plasma membrane raft
GO:0045202 synapse
GO:0045211 postsynaptic membrane


-  Descriptions from all associated GenBank mRNAs
  U62437 - Human nicotinic acetylcholine receptor beta2 subunit precursor, mRNA, complete cds.
JD141210 - Sequence 122234 from Patent EP1572962.
X53179 - Human mRNA for neuronal nicotinic acetylcholine receptor beta-2 subunit.
JD458889 - Sequence 439913 from Patent EP1572962.
JD390060 - Sequence 371084 from Patent EP1572962.
JD125437 - Sequence 106461 from Patent EP1572962.
JD407319 - Sequence 388343 from Patent EP1572962.
AK313470 - Homo sapiens cDNA, FLJ94017, Homo sapiens cholinergic receptor, nicotinic, beta polypeptide 2(neuronal) (CHRNB2), mRNA.
BC075040 - Homo sapiens cholinergic receptor, nicotinic, beta 2 (neuronal), mRNA (cDNA clone MGC:103958 IMAGE:30915357), complete cds.
BC075041 - Homo sapiens cholinergic receptor, nicotinic, beta 2 (neuronal), mRNA (cDNA clone MGC:104119 IMAGE:30915573), complete cds.
KJ890915 - Synthetic construct Homo sapiens clone ccsbBroadEn_00309 CHRNB2 gene, encodes complete protein.
Y08415 - H.sapiens mRNA for nicotinic acetylcholine receptor beta2 subunit precursor.
JD193054 - Sequence 174078 from Patent EP1572962.
JD225864 - Sequence 206888 from Patent EP1572962.
JD243763 - Sequence 224787 from Patent EP1572962.
JD341304 - Sequence 322328 from Patent EP1572962.
JD447825 - Sequence 428849 from Patent EP1572962.
JD114689 - Sequence 95713 from Patent EP1572962.
JD097160 - Sequence 78184 from Patent EP1572962.
JD562462 - Sequence 543486 from Patent EP1572962.
JD501583 - Sequence 482607 from Patent EP1572962.
JD565611 - Sequence 546635 from Patent EP1572962.
JD319184 - Sequence 300208 from Patent EP1572962.
JD532937 - Sequence 513961 from Patent EP1572962.
JD346831 - Sequence 327855 from Patent EP1572962.
JD468425 - Sequence 449449 from Patent EP1572962.
JD484594 - Sequence 465618 from Patent EP1572962.
JD111864 - Sequence 92888 from Patent EP1572962.
JD408649 - Sequence 389673 from Patent EP1572962.
JD133793 - Sequence 114817 from Patent EP1572962.
JD465355 - Sequence 446379 from Patent EP1572962.
JD548925 - Sequence 529949 from Patent EP1572962.
JD465812 - Sequence 446836 from Patent EP1572962.
JD183602 - Sequence 164626 from Patent EP1572962.
JD544279 - Sequence 525303 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04080 - Neuroactive ligand-receptor interaction

Reactome (by CSHL, EBI, and GO)

Protein P17787 (Reactome details) participates in the following event(s):

R-HSA-622325 Activation of highly sodium permeable nicotinic acetylcholine receptors
R-HSA-629588 Binding of acetylcholine to highly sodium permeable acetylcholine receptors
R-HSA-622326 Activation of highly calcium permeable nicotinic acetylcholine receptors
R-HSA-629599 Binding of acetylcholine to highly calcium permeable acetylcholine receptors
R-HSA-629595 Activation of highly calcium permeable postsynaptic nicotinic acetylcholine receptors
R-HSA-629596 Binding of acetylcholine to highly calcium permeable postsynaptic nicotinic acetylcholine receptors
R-HSA-629587 Highly sodium permeable acetylcholine nicotinic receptors
R-HSA-629597 Highly calcium permeable nicotinic acetylcholine receptors
R-HSA-622323 Presynaptic nicotinic acetylcholine receptors
R-HSA-622327 Postsynaptic nicotinic acetylcholine receptors
R-HSA-629594 Highly calcium permeable postsynaptic nicotinic acetylcholine receptors
R-HSA-629602 Activation of Nicotinic Acetylcholine Receptors
R-HSA-181431 Acetylcholine binding and downstream events
R-HSA-112314 Neurotransmitter receptors and postsynaptic signal transmission
R-HSA-112315 Transmission across Chemical Synapses
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: ACHB2_HUMAN, NM_000748, NP_000739, P17787, Q9UEH9
UCSC ID: uc001ffg.3
RefSeq Accession: NM_000748
Protein: P17787 (aka ACHB2_HUMAN or ACHN_HUMAN)
CCDS: CCDS1070.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene CHRNB2:
adnfle (Autosomal Dominant Sleep-Related Hypermotor (Hyperkinetic) Epilepsy)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_000748.2
exon count: 6CDS single in 3' UTR: no RNA size: 5731
ORF size: 1509CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3207.00frame shift in genome: no % Coverage: 99.77
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.