Shank1 SH3 and multiple ankyrin repeat domains 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Shank1provided by RGD
Official Full Name: SH3 and multiple ankyrin repeat domains 1provided by RGD
Primary source: RGD:621011
See related: EnsemblRapid:ENSRNOG00000019207 AllianceGenome:RGD:621011
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Spank1; Sstrip; Shank1a
Summary: Enables several functions, including protein C-terminus binding activity; protein domain specific binding activity; and signaling receptor binding activity. Involved in positive regulation of dendritic spine development; protein-containing complex assembly; and synapse maturation. Located in dendritic spine; postsynaptic density; and postsynaptic membrane. Orthologous to human SHANK1 (SH3 and multiple ankyrin repeat domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 35.9) and Uterus (RPKM 2.1) See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (103944416..103993887)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (94807879..94857356)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (100297137..100344377)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Correlation of distinct behaviors to the modified expression of cerebral Shank1,3 and BDNF in two autistic animal models.
Title: Correlation of distinct behaviors to the modified expression of cerebral Shank1,3 and BDNF in two autistic animal models.
Dynamic Change of Shanks Gene mRNA Expression and DNA Methylation in Epileptic Rat Model and Human Patients.
Title: Dynamic Change of Shanks Gene mRNA Expression and DNA Methylation in Epileptic Rat Model and Human Patients.
Loss of scaffold proteins via knockdown of Shank1 or Shank2, but not Shank3, led to a reduction of the number but not the unitary response of AMPAR-containing synapses. Only when both Shank1 and Shank2 were knocked down, were both the number and the unitary response of active synapses reduced. This reduction was accompanied by a decrease in NMDAR-mediated synaptic response.
Title: Shank Proteins Differentially Regulate Synaptic Transmission.
SHANK1 and SHANK3 act as integrin activation inhibitors by sequestering active Rap1 and R-Ras via the SPN domain and thus limiting their bioavailability at the plasma membrane.
Title: SHANK proteins limit integrin activation by directly interacting with Rap1 and R-Ras.
Upon depolarization with high K+, neither the intensity nor distribution of label for GKAP changed, but labeling intensity for Shank at the postsynaptic density increased to ~150% of controls.
Title: Differential distribution of Shank and GKAP at the postsynaptic density.
All three Shank mRNA isoforms are differentially expressed in the synaptic neuropil.
Title: Alternative polyadenylation and differential expression of Shank mRNAs in the synaptic neuropil.
this study provides a new level of understanding of the specificity and structural plasticity of the shank PDZ domain.
Title: The structural flexibility of the shank1 PDZ domain is important for its binding to different ligands.
Despite the fact that the betaPIX coiled-coil domain exposes three PDZ binding motifs in the C-termini, the betaPIX trimer associates with a single Shank PDZ.
Title: Structural basis for asymmetric association of the betaPIX coiled coil and shank PDZ.
shank and homer synaptic cluster disassembly is driven by soluble beta-amyloid(1-40) through divergent NMDAR-dependent signalling pathways
Title: Disassembly of shank and homer synaptic clusters is driven by soluble beta-amyloid(1-40) through divergent NMDAR-dependent signalling pathways.
Results show that dendritic targeting of shank1 mRNA granules involves KIF5C and the KIF5-associated RNA-binding protein staufen1.
Title: Shank1 mRNA: dendritic transport by kinesin and translational control by the 5'untranslated region.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Shank1 (e-PCR), detects polymorphism
- UniSTS:496555

BE101668 (e-PCR)
- UniSTS:243668

RH137039 (e-PCR)
- UniSTS:219128

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein-coupled receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables SH3 domain binding	IPI Inferred from Physical Interaction more info	PubMed
enables ankyrin repeat binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ionotropic glutamate receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables ionotropic glutamate receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables ionotropic glutamate receptor binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed
enables scaffold protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor complex adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables somatostatin receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural constituent of postsynaptic density	ISO Inferred from Sequence Orthology more info
enables synaptic receptor adaptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables synaptic receptor adaptor activity	IDA Inferred from Direct Assay more info	PubMed
enables synaptic receptor adaptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in adult behavior	ISO Inferred from Sequence Orthology more info
involved_in associative learning	ISO Inferred from Sequence Orthology more info
involved_in associative learning	ISS Inferred from Sequence or Structural Similarity more info
involved_in dendritic spine morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in dendritic spine morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in determination of affect	ISO Inferred from Sequence Orthology more info
involved_in habituation	ISO Inferred from Sequence Orthology more info
involved_in long-term memory	ISO Inferred from Sequence Orthology more info
involved_in long-term memory	ISS Inferred from Sequence or Structural Similarity more info
involved_in maintenance of postsynaptic density structure	IEA Inferred from Electronic Annotation more info
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of actin filament bundle assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of actin filament bundle assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuromuscular process controlling balance	ISO Inferred from Sequence Orthology more info
involved_in neuromuscular process controlling balance	ISS Inferred from Sequence or Structural Similarity more info
involved_in olfactory behavior	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendritic spine development	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of excitatory postsynaptic potential	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of excitatory postsynaptic potential	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to synapse	ISO Inferred from Sequence Orthology more info
involved_in protein localization to synapse	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein-containing complex assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of AMPA receptor activity	ISO Inferred from Sequence Orthology more info
involved_in regulation of AMPA receptor activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in righting reflex	ISO Inferred from Sequence Orthology more info
involved_in social behavior	ISO Inferred from Sequence Orthology more info
involved_in synapse maturation	IDA Inferred from Direct Assay more info	PubMed
involved_in vocalization behavior	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
located_in cytosol	TAS Traceable Author Statement more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite	NAS Non-traceable Author Statement more info	PubMed
is_active_in dendritic spine	IBA Inferred from Biological aspect of Ancestor more info
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
located_in dendritic spine	ISO Inferred from Sequence Orthology more info
located_in excitatory synapse	ISO Inferred from Sequence Orthology more info
located_in excitatory synapse	ISS Inferred from Sequence or Structural Similarity more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuron projection	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in postsynaptic density	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: SH3 and multiple ankyrin repeat domains protein 1

Names: GKAP/SAPAP-interacting protein; SAPAP-interacting protein synamon; SH3/ankyrin domain gene 1; SPANK-1; SSTR-interacting protein; somatostatin receptor-interacting protein; synamon

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_031751.4 → NP_113939.2 SH3 and multiple ankyrin repeat domains protein 1

See identical proteins and their annotated locations for NP_113939.2

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q9QZZ8, Q9WU13, Q9WUE8, Q9WV48

UniProtKB/TrEMBL

A6JAM9

Related

ENSRNOP00000026100.3, ENSRNOT00000026100.7

Conserved Domains (8) summary

cd09506
Location:2100 → 2165

SAM_Shank1,2,3; SAM domain of Shank1,2,3 family proteins

smart00454
Location:2103 → 2167

SAM; Sterile alpha motif

cd00204
Location:274 → 399

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd00992
Location:661 → 754

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam12796
Location:285 → 377

Ank_2; Ankyrin repeats (3 copies)

pfam16511
Location:73 → 156

FERM_f0; N-terminal or F0 domain of Talin-head FERM

sd00045
Location:279 → 311

ANK; ANK repeat [structural motif]

cl17036
Location:557 → 608

SH3; Src Homology 3 domain superfamily

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

103944416..103993887

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017589761.3 → XP_017445250.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X5

UniProtKB/TrEMBL

A6JAM9

Conserved Domains (6) summary

cd00204
Location:274 → 399

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd00992
Location:661 → 754

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam12796
Location:285 → 377

Ank_2; Ankyrin repeats (3 copies)

pfam16511
Location:73 → 156

FERM_f0; N-terminal or F0 domain of Talin-head FERM

sd00045
Location:279 → 311

ANK; ANK repeat [structural motif]

cl17036
Location:557 → 608

SH3; Src Homology 3 domain superfamily
XM_008759416.4 → XP_008757638.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X4

UniProtKB/TrEMBL

A6JAM9

Conserved Domains (6) summary

cd00204
Location:274 → 399

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd00992
Location:661 → 754

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam12796
Location:285 → 377

Ank_2; Ankyrin repeats (3 copies)

pfam16511
Location:73 → 156

FERM_f0; N-terminal or F0 domain of Talin-head FERM

sd00045
Location:279 → 311

ANK; ANK repeat [structural motif]

cl17036
Location:557 → 608

SH3; Src Homology 3 domain superfamily
XM_063274933.1 → XP_063131003.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X1

UniProtKB/TrEMBL

A6JAN0
XM_039091745.2 → XP_038947673.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X3

UniProtKB/TrEMBL

A6JAN0

Conserved Domains (7) summary

PTZ00322
Location:333 → 453

PTZ00322; 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional

cd09506
Location:2065 → 2130

SAM_Shank1,2,3; SAM domain of Shank1,2,3 family proteins

PHA03095
Location:174 → 392

PHA03095; ankyrin-like protein; Provisional

cd00992
Location:661 → 754

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

sd00045
Location:279 → 311

ANK; ANK repeat [structural motif]

cd17175
Location:70 → 158

FERM_F0_SHANK1; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F0 sub-domain, found in SH3 and multiple ankyrin repeat domains protein 1 (SHANK1)

cl17036
Location:557 → 608

SH3; Src Homology 3 domain superfamily
XM_017589760.3 → XP_017445249.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X2

UniProtKB/TrEMBL

A6JAN1

Conserved Domains (8) summary

cd09506
Location:2091 → 2156

SAM_Shank1,2,3; SAM domain of Shank1,2,3 family proteins

smart00454
Location:2094 → 2158

SAM; Sterile alpha motif

cd00204
Location:274 → 399

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd00992
Location:652 → 745

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam12796
Location:285 → 377

Ank_2; Ankyrin repeats (3 copies)

pfam16511
Location:73 → 156

FERM_f0; N-terminal or F0 domain of Talin-head FERM

sd00045
Location:279 → 311

ANK; ANK repeat [structural motif]

cl17036
Location:557 → 608

SH3; Src Homology 3 domain superfamily
XM_039091758.2 → XP_038947686.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X6

Conserved Domains (3) summary

cd09506
Location:1616 → 1681

SAM_Shank1,2,3; SAM domain of Shank1,2,3 family proteins

cd00992
Location:177 → 270

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cl17036
Location:73 → 124

SH3; Src Homology 3 domain superfamily
XM_063274953.1 → XP_063131023.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X12
XM_063274952.1 → XP_063131022.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X11
XM_063274951.1 → XP_063131021.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X9
XM_039091766.2 → XP_038947694.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X10

Conserved Domains (2) summary

cd09506
Location:1486 → 1551

SAM_Shank1,2,3; SAM domain of Shank1,2,3 family proteins

cd00992
Location:47 → 140

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
XM_063274947.1 → XP_063131017.1 SH3 and multiple ankyrin repeat domains protein 1 isoform X7
XM_039091761.2 → XP_038947689.2 SH3 and multiple ankyrin repeat domains protein 1 isoform X8