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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret
Donations are also welcome
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If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
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RAP1GDS1 (RAP1, GTP-GDP dissociation stimulator 1)


Other namesRAP1
GTP-GDP dissociation stimulator 1
LocusID (NCBI) 5910
Location 4q23
Location_base_pair Starts at 99182527 and ends at 99365012 bp from pter ( according to hg19-Feb_2009)  [Mapping]


Description 181.2 kb - 15 exons
Transcription mRNA 2487 bases


Description rap1gds, also refered as smgGDS - 61.1 kDa, 558 aa. Contains in major part an armadillo motif, which is composed of tandemly repeated sequences of 43 amino acid residues.
Expression Ubiquitary, high level of expression in central nervous system.
Function Acts as guanine nucleotide exchange factor (GEF). Activates GDP/GTP exchange reaction on numerous small proteins with GTPase activity (G proteins) containing a C-terminal polybasic region (PBR), including Ras and Rho family GTPases such as rap1a, rap1b, K-ras, rac1, rac2, rhoA, ralB. These proteins play a pivotal role in cell proliferation, differentiation and oncogenic transformation.
Homology With other mammalian rap1gds1 proteins.

Implicated in

Entity t(4;11)(q21;p15).
Disease T cell acute lymphocytic leukemia.
Cytogenetics Additional anomalies in 2/3 cases.
Hybrid/Mutated Gene Quasi totality of RAP1GDS1 fused with 5' part of NUP98.
Abnormal Protein Chimeric protein 5' -NUP98 - RAP1GDS1 - 3'.

Other Leukemias implicated (Data extracted from papers in the Atlas)

Leukemias 11q23ChildAMLID1615 11q23ID1030

External links

HGNC (Hugo)RAP1GDS1   9859
Entrez_Gene (NCBI)RAP1GDS1  5910  RAP1, GTP-GDP dissociation stimulator 1
GeneCards (Weizmann)RAP1GDS1
Ensembl hg19 (Hinxton)ENSG00000138698 [Gene_View]  chr4:99182527-99365012 [Contig_View]  RAP1GDS1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000138698 [Gene_View]  chr4:99182527-99365012 [Contig_View]  RAP1GDS1 [Vega]
ICGC DataPortalENSG00000138698
Genatlas (Paris)RAP1GDS1
SOURCE (Princeton)RAP1GDS1
Genomic and cartography
GoldenPath hg19 (UCSC)RAP1GDS1  -     chr4:99182527-99365012 +  4q23-q25   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)RAP1GDS1  -     4q23-q25   [Description]    (hg38-Dec_2013)
EnsemblRAP1GDS1 - 4q23-q25 [CytoView hg19]  RAP1GDS1 - 4q23-q25 [CytoView hg38]
Mapping of homologs : NCBIRAP1GDS1 [Mapview hg19]  RAP1GDS1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF215923 AF237413 AI800264 AK055032 AK295156
RefSeq transcript (Entrez)NM_001100426 NM_001100427 NM_001100428 NM_001100429 NM_001100430 NM_021159
RefSeq genomic (Entrez)AC_000136 NC_000004 NC_018915 NT_016354 NW_001838915 NW_004929320
Consensus coding sequences : CCDS (NCBI)RAP1GDS1
Cluster EST : UnigeneHs.132858 [ NCBI ]
CGAP (NCI)Hs.132858
Alternative Splicing : Fast-db (Paris)GSHG0022746
Alternative Splicing GalleryENSG00000138698
Gene ExpressionRAP1GDS1 [ NCBI-GEO ]     RAP1GDS1 [ SEEK ]   RAP1GDS1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP52306 (Uniprot)
NextProtP52306  [Medical]
With graphics : InterProP52306
Splice isoforms : SwissVarP52306 (Swissvar)
Domaine pattern : Prosite (Expaxy)ARM_REPEAT (PS50176)   
Domains : Interpro (EBI)ARM-like    ARM-type_fold    Armadillo   
Related proteins : CluSTrP52306
Domain families : Pfam (Sanger)Arm (PF00514)   
Domain families : Pfam (NCBI)pfam00514   
Domain families : Smart (EMBL)ARM (SM00185)  
DMDM Disease mutations5910
Blocks (Seattle)P52306
Human Protein AtlasENSG00000138698
Peptide AtlasP52306
IPIIPI00607591   IPI00856100   IPI00619924   IPI00424869   IPI00855767   IPI00855727   IPI00968047   IPI00967638   IPI00964475   IPI00967154   IPI00966126   IPI00965229   IPI00967796   IPI00966423   IPI00967339   IPI00964784   IPI00965386   
Protein Interaction databases
IntAct (EBI)P52306
Ontologies - Pathways
Ontology : AmiGOGTPase activator activity  mitochondrion  endoplasmic reticulum  cytosol  vascular smooth muscle contraction  myosin filament assembly  positive regulation of Rho GTPase activity  negative regulation of endoplasmic reticulum calcium ion concentration  positive regulation of mitochondrial calcium ion concentration  extracellular vesicular exosome  
Ontology : EGO-EBIGTPase activator activity  mitochondrion  endoplasmic reticulum  cytosol  vascular smooth muscle contraction  myosin filament assembly  positive regulation of Rho GTPase activity  negative regulation of endoplasmic reticulum calcium ion concentration  positive regulation of mitochondrial calcium ion concentration  extracellular vesicular exosome  
Protein Interaction DatabaseRAP1GDS1
DoCM (Curated mutations)RAP1GDS1
Wikipedia pathwaysRAP1GDS1
Gene fusion - rearrangements
Rearrangement : TICdbNUP98 [11p15.4]  -  RAP1GDS1 [18q11.2]
Polymorphisms : SNP, variants
NCBI Variation ViewerRAP1GDS1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)RAP1GDS1
Exome Variant ServerRAP1GDS1
Genetic variants : HAPMAPRAP1GDS1
Genomic Variants (DGV)RAP1GDS1 [DGVbeta]
ICGC Data PortalENSG00000138698 
Cancer Gene: CensusRAP1GDS1 
Somatic Mutations in Cancer : COSMICRAP1GDS1 
CONAN: Copy Number AnalysisRAP1GDS1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
DECIPHER (Syndromes)4:99182527-99365012
Mutations and Diseases : HGMDRAP1GDS1
NextProtP52306 [Medical]
Disease Genetic AssociationRAP1GDS1
Huge Navigator RAP1GDS1 [HugePedia]  RAP1GDS1 [HugeCancerGEM]
snp3D : Map Gene to Disease5910
DGIdb (Drug Gene Interaction db)RAP1GDS1
General knowledge
Homologs : HomoloGeneRAP1GDS1
Homology/Alignments : Family Browser (UCSC)RAP1GDS1
Phylogenetic Trees/Animal Genes : TreeFamRAP1GDS1
Chemical/Protein Interactions : CTD5910
Chemical/Pharm GKB GenePA34221
Clinical trialRAP1GDS1
Cancer Resource (Charite)ENSG00000138698
Other databases
PubMed30 Pubmed reference(s) in Entrez


Inhibition of adenylate cyclase activity by galanin in rat insulinoma cells is mediated by the G-protein Gi3.
de Mazancourt P, Goldsmith PK, Weinstein LS
The Biochemical journal. 1994 ; 303 ( Pt 2) : 369-375.
PMID 7526840
The (4;11)(q21;p15) translocation fuses the NUP98 and RAP1GDS1 genes and is recurrent in T-cell acute lymphocytic leukemia.
Hussey DJ, Nicola M, Moore S, Peters GB, Dobrovic A
Blood. 1999 ; 94 (6) : 2072-2079.
PMID 10477737
t(4;11)(q21;p15) translocation involving NUP98 and RAP1GDS1 genes: characterization of a new subset of T acute lymphoblastic leukaemia.
Mecucci C, La Starza R, Negrini M, Sabbioni S, Crescenzi B, Leoni P, Di Raimondo F, Krampera M, Cimino G, Tafuri A, Cuneo A, Vitale A, FoˆÝ R
British journal of haematology. 2000 ; 109 (4) : 788-793.
PMID 10929031
SmgGDS displays differential binding and exchange activity towards different Ras isoforms.
Vikis HG, Stewart S, Guan KL
Oncogene. 2002 ; 21 (15) : 2425-2432.
PMID 11948427
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI


Written10-2003Franck Viguié


This paper should be referenced as such :
Viguié, F
RAP1GDS1 (RAP1, GTP-GDP dissociation stimulator 1)
Atlas Genet Cytogenet Oncol Haematol. 2004;8(1):6-6.
Free journal version : [ pdf ]   [ DOI ]

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indexed on : Tue Feb 17 20:43:59 CET 2015

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