Human Gene ARFGAP2 (uc001ndt.3) Description and Page Index
  Description: Homo sapiens ADP-ribosylation factor GTPase activating protein 2 (ARFGAP2), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr11:47,185,849-47,198,676 Size: 12,828 Total Exon Count: 16 Strand: -
Coding Region
   Position: hg19 chr11:47,187,033-47,198,404 Size: 11,372 Coding Exon Count: 16 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:47,185,849-47,198,676)mRNA (may differ from genome)Protein (521 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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neXtProtOMIMPubMedReactomeStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ARFG2_HUMAN
DESCRIPTION: RecName: Full=ADP-ribosylation factor GTPase-activating protein 2; Short=ARF GAP 2; AltName: Full=GTPase-activating protein ZNF289; AltName: Full=Zinc finger protein 289;
FUNCTION: GTPase-activating protein (GAP) for ADP ribosylation factor 1 (ARF1). Implicated in coatomer-mediated protein transport between the Golgi complex and the endoplasmic reticulum. Hydrolysis of ARF1-bound GTP may lead to dissociation of coatomer from Golgi-derived membranes to allow fusion with target membranes.
SUBUNIT: Interacts with the coatomer complex. Interacts with the C-terminal appendage domain of COPG1.
SUBCELLULAR LOCATION: Cytoplasm. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side. Note=Also found on peripheral punctate structures likely to be endoplasmic reticulum- Golgi intermediate compartment.
MISCELLANEOUS: Vero cells overexpressing truncated ARFGAP2 show accumulation of cholera toxin A subunit in the Golgi complex rather than the endoplasmic reticulum.
SIMILARITY: Contains 1 Arf-GAP domain.

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 34.11 RPKM in Brain - Cerebellum
Total median expression: 1103.16 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -141.20272-0.519 Picture PostScript Text
3' UTR -489.621184-0.414 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
IPR001164 - ArfGAP

Pfam Domains:
PF01412 - Putative GTPase activating protein for Arf

SCOP Domains:
57863 - Pyk2-associated protein beta ARF-GAP domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2P57
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8N6H7
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:0005096 GTPase activator activity
GO:0046872 metal ion binding

Biological Process:
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER
GO:0015031 protein transport
GO:0016192 vesicle-mediated transport
GO:0043547 positive regulation of GTPase activity

Cellular Component:
GO:0000139 Golgi membrane
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AK098324 - Homo sapiens cDNA FLJ41005 fis, clone UTERU2017613, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289), mRNA.
AB073358 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla10535, full insert sequence.
BC036823 - Homo sapiens ADP-ribosylation factor GTPase activating protein 2, mRNA (cDNA clone IMAGE:5104317).
BC030148 - Homo sapiens ADP-ribosylation factor GTPase activating protein 2, mRNA (cDNA clone MGC:23136 IMAGE:4558453), complete cds.
AK027482 - Homo sapiens cDNA FLJ14576 fis, clone NT2RM4001092, weakly similar to ZINC FINGER PROTEIN GLO3.
AL834337 - Homo sapiens mRNA; cDNA DKFZp761B0411 (from clone DKFZp761B0411).
AK129511 - Homo sapiens cDNA FLJ26000 fis, clone DMC07378, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289).
JD445434 - Sequence 426458 from Patent EP1572962.
JD453342 - Sequence 434366 from Patent EP1572962.
JD127031 - Sequence 108055 from Patent EP1572962.
JD153913 - Sequence 134937 from Patent EP1572962.
JD080150 - Sequence 61174 from Patent EP1572962.
JD556828 - Sequence 537852 from Patent EP1572962.
JD498498 - Sequence 479522 from Patent EP1572962.
JD186380 - Sequence 167404 from Patent EP1572962.
JD342790 - Sequence 323814 from Patent EP1572962.
JD455502 - Sequence 436526 from Patent EP1572962.
JD024726 - Sequence 5750 from Patent EP1572962.
JD019037 - Sequence 61 from Patent EP1572962.
JD029527 - Sequence 10551 from Patent EP1572962.
JD519545 - Sequence 500569 from Patent EP1572962.
JD126123 - Sequence 107147 from Patent EP1572962.
JD403436 - Sequence 384460 from Patent EP1572962.
JD195579 - Sequence 176603 from Patent EP1572962.
JD477764 - Sequence 458788 from Patent EP1572962.
JD123984 - Sequence 105008 from Patent EP1572962.
JD122134 - Sequence 103158 from Patent EP1572962.
AK304541 - Homo sapiens cDNA FLJ58830 complete cds, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289), mRNA.
JD121395 - Sequence 102419 from Patent EP1572962.
JD255117 - Sequence 236141 from Patent EP1572962.
JD204052 - Sequence 185076 from Patent EP1572962.
AK315992 - Homo sapiens cDNA, FLJ78891 complete cds, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289), mRNA.
JD492744 - Sequence 473768 from Patent EP1572962.
JD256181 - Sequence 237205 from Patent EP1572962.
AK301785 - Homo sapiens cDNA FLJ53674 complete cds, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289), mRNA.
JD051880 - Sequence 32904 from Patent EP1572962.
JD115184 - Sequence 96208 from Patent EP1572962.
JD049496 - Sequence 30520 from Patent EP1572962.
JD141934 - Sequence 122958 from Patent EP1572962.
EU832437 - Synthetic construct Homo sapiens clone HAIB:100067466; DKFZo004H0628 ADP-ribosylation factor GTPase activating protein 2 protein (ARFGAP2) gene, encodes complete protein.
EU832352 - Synthetic construct Homo sapiens clone HAIB:100067381; DKFZo008H0627 ADP-ribosylation factor GTPase activating protein 2 protein (ARFGAP2) gene, encodes complete protein.
JD020386 - Sequence 1410 from Patent EP1572962.
JD030175 - Sequence 11199 from Patent EP1572962.
AK300347 - Homo sapiens cDNA FLJ53655 complete cds, highly similar to Homo sapiens zinc finger protein 289, ID1 regulated (ZNF289), mRNA.
LF205771 - JP 2014500723-A/13274: Polycomb-Associated Non-Coding RNAs.
MA441348 - JP 2018138019-A/13274: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04144 - Endocytosis

Reactome (by CSHL, EBI, and GO)

Protein Q8N6H7 (Reactome details) participates in the following event(s):

R-HSA-6807875 ARFGAP, cargo, v-SNAREs and p24 proteins bind nascent COPI complex
R-HSA-6811417 ARFGAP, cargo, vSNARES and p24 proteins bind COPI vesicles at Golgi
R-HSA-6807877 ARFGAPs stimulate ARF GTPase activity
R-HSA-6811418 ARFGAPs stimulate ARF GTPase activity at the Golgi membrane
R-HSA-6807878 COPI-mediated anterograde transport
R-HSA-6811434 COPI-dependent Golgi-to-ER retrograde traffic
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-8856688 Golgi-to-ER retrograde transport
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ARFG2_HUMAN, D3DQQ9, Nbla10535, NM_032389, NP_115765, Q3LIF2, Q8N3I1, Q8N6H7, Q96SX7, ZNF289
UCSC ID: uc001ndt.3
RefSeq Accession: NM_032389
Protein: Q8N6H7 (aka ARFG2_HUMAN)
CCDS: CCDS7926.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_032389.4
exon count: 16CDS single in 3' UTR: no RNA size: 3039
ORF size: 1566CDS single in intron: no Alignment % ID: 99.97
txCdsPredict score: 3095.00frame shift in genome: no % Coverage: 99.44
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.