Human Gene RANBP9 (ENST00000011619.6) Description and Page Index
  Description: Homo sapiens RAN binding protein 9 (RANBP9), mRNA. (from RefSeq NM_005493)
RefSeq Summary (NM_005493): This gene encodes a protein that binds RAN, a small GTP binding protein belonging to the RAS superfamily that is essential for the translocation of RNA and proteins through the nuclear pore complex. The protein encoded by this gene has also been shown to interact with several other proteins, including met proto-oncogene, homeodomain interacting protein kinase 2, androgen receptor, and cyclin-dependent kinase 11. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: AF306510.1, BC052781.1 [ECO:0000332] RNAseq introns :: mixed/partial sample support SAMEA1965299, SAMEA1966682 [ECO:0000350] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000011619.6/ ENSP00000011619.3 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END##
Gencode Transcript: ENST00000011619.6
Gencode Gene: ENSG00000010017.13
Transcript (Including UTRs)
   Position: hg38 chr6:13,621,498-13,711,835 Size: 90,338 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg38 chr6:13,622,362-13,711,505 Size: 89,144 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr6:13,621,498-13,711,835)mRNA (may differ from genome)Protein (729 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
PubMedReactomeStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Ran-binding protein 9; Short=RanBP9; AltName: Full=BPM-L; AltName: Full=BPM90; AltName: Full=Ran-binding protein M; Short=RanBPM; AltName: Full=RanBP7;
FUNCTION: May act as an adapter protein to couple membrane receptors to intracellular signaling pathways. May be involved in signaling of ITGB2/LFA-1 and other integrins. Enhances HGF-MET signaling by recruiting Sos and activating the Ras pathway. Enhances dihydrotestosterone-induced transactivation activity of AR, as well as dexamethasone-induced transactivation activity of NR3C1, but not affect estrogen-induced transactivation. Stabilizes TP73 isoform Alpha, probably by inhibiting its ubiquitination, and increases its proapoptotic activity. Inhibits the kinase activity of DYRK1A and DYRK1B. Inhibits FMR1 binding to RNA (By similarity).
SUBUNIT: Interacts with NGFR and DDX4 (By similarity). Interacts with GTP-bound Ran, AR, CDC2L1/p110C, CALB1, S100A7, USP11, MKLN1, SOS1 or SOS2, GID8, and FMR1. Interacts with the Dyrk kinases HIPK2, DYRK1A, and DYRK1B. Interacts with TP73 isoform Alpha but not with TP53. Interacts with the HGF receptor MET and the integrins ITGB1 and ITGB2, but not with ITGAL. Part of a complex consisting of RANBP9, MKLN1 and GID8. Part of a complex consisting of RANBP9, RAN, DYRK1B and COPS5. Directly interacts with RANBP10.
INTERACTION: Q9NRI5:DISC1; NbExp=6; IntAct=EBI-636085, EBI-529989; Q9Y463:DYRK1B; NbExp=4; IntAct=EBI-636085, EBI-634187; P36873-2:PPP1CC; NbExp=3; IntAct=EBI-636085, EBI-3964623; P31151:S100A7; NbExp=3; IntAct=EBI-636085, EBI-357520;
SUBCELLULAR LOCATION: Cytoplasm, cytosol. Nucleus. Note==Predominantly cytoplasmic. A phosphorylated form is associated with the plasma membrane.
TISSUE SPECIFICITY: Ubiquitously expressed, with highest levels in testes, placenta, heart, and muscle, and lowest levels in lung. Within the brain, expressed predominantly by neurons in the gray matter of cortex, the granular layer of cerebellum and the Purkinje cells.
DOMAIN: The SPRY domain mediates the interaction with MET, AR, and CDC2L1.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR. Phosphorylated in response to stress. Can be phosphorylated by the cleaved p110 form of CDC2L1 (p110C).
PTM: Ubiquitinated. Polyubiquitination targets the protein for rapid degradation via the ubiquitin system. Can be deubiquitinated by USP11.
SIMILARITY: Belongs to the RANBP9/10 family.
SIMILARITY: Contains 1 B30.2/SPRY domain.
SIMILARITY: Contains 1 CTLH domain.
SIMILARITY: Contains 1 LisH domain.
CAUTION: According to some authors (PubMed:9817760) RANBP9 would be located in centrosomes and involved in microtubule assembly, but other authors infirmed these results in (PubMed:11470507).
SEQUENCE CAUTION: Sequence=AAH19886.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAH52781.1; Type=Frameshift; Positions=13, 30, 34; Sequence=AAK15469.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAA23216.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 66.93 RPKM in Testis
Total median expression: 900.74 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 -178.30330-0.540 Picture PostScript Text
3' UTR -193.00864-0.223 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
IPR001870 - B30.2/SPRY
IPR008985 - ConA-like_lec_gl_sf
IPR013144 - CRA_dom
IPR024964 - CTLH/CRA
IPR006595 - CTLH_C
IPR006594 - LisH_dimerisation
IPR013720 - LisH_dimerisation_subgr
IPR018355 - SPla/RYanodine_receptor_subgr
IPR003877 - SPRY_rcpt

Pfam Domains:
PF10607 - CTLH/CRA C-terminal to LisH motif domain
PF08513 - LisH
PF00622 - SPRY domain

ModBase Predicted Comparative 3D Structure on Q96S59
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
Genome BrowserGenome BrowserNo orthologGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein Sequence Protein Sequence  
AlignmentAlignment Alignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005088 Ras guanyl-nucleotide exchange factor activity
GO:0005515 protein binding
GO:0008536 Ran GTPase binding
GO:0019899 enzyme binding

Biological Process:
GO:0000165 MAPK cascade
GO:0007020 microtubule nucleation
GO:0007411 axon guidance
GO:0065003 macromolecular complex assembly
GO:0070373 negative regulation of ERK1 and ERK2 cascade

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005875 microtubule associated complex
GO:0005886 plasma membrane
GO:0016020 membrane

-  Descriptions from all associated GenBank mRNAs
  BC063849 - Homo sapiens RAN binding protein 9, mRNA (cDNA clone MGC:75091 IMAGE:6186252), complete cds.
AF306510 - Homo sapiens RANBPM mRNA, complete cds.
BC052781 - Homo sapiens RAN binding protein 9, mRNA (cDNA clone IMAGE:5272048), partial cds.
AB008515 - Homo sapiens mRNA for RanBPM, complete cds.
AB055311 - Homo sapiens mRNA for RanBPM, complete cds.
AK313334 - Homo sapiens cDNA, FLJ93856, Homo sapiens RAN binding protein 9 (RANBP9), mRNA.
JD485335 - Sequence 466359 from Patent EP1572962.
JD359914 - Sequence 340938 from Patent EP1572962.
KU921435 - Homo sapiens BCRC-4 bladder cancer related circular RNA, complete sequence.
BC019886 - Homo sapiens RAN binding protein 9, mRNA (cDNA clone IMAGE:4419330), partial cds.
AF064606 - Homo sapiens KB07 protein mRNA, partial cds.
BC053374 - Homo sapiens RAN binding protein 9, mRNA (cDNA clone IMAGE:6169687), partial cds.
JD041501 - Sequence 22525 from Patent EP1572962.
JD477150 - Sequence 458174 from Patent EP1572962.
JD439549 - Sequence 420573 from Patent EP1572962.
JD191181 - Sequence 172205 from Patent EP1572962.
JD523125 - Sequence 504149 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96S59 (Reactome details) participates in the following event(s):

R-HSA-374673 L1 binds RanBPM
R-HSA-8851859 Activated MET binds RANBP9 and SOS1
R-HSA-8851877 RAS guanyl nucleotide exchange by SOS1 associated with RANBP9 and MET
R-HSA-5672965 RAS GEFs promote RAS nucleotide exchange
R-HSA-373760 L1CAM interactions
R-HSA-8851805 MET activates RAS signaling
R-HSA-422475 Axon guidance
R-HSA-6806834 Signaling by MET
R-HSA-1266738 Developmental Biology
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-5673001 RAF/MAP kinase cascade
R-HSA-162582 Signal Transduction
R-HSA-5684996 MAPK1/MAPK3 signaling
R-HSA-5683057 MAPK family signaling cascades

-  Other Names for This Gene
  Alternate Gene Symbols: A0PJA2, NM_005493, O94764, Q6P3T7, Q7LBR2, Q7Z7F9, Q96S59, RANB9_HUMAN, RANBPM, uc003nbb.1, uc003nbb.2, uc003nbb.3, uc003nbb.4
UCSC ID: uc003nbb.4
RefSeq Accession: NM_005493
Protein: Q96S59 (aka RANB9_HUMAN)
CCDS: CCDS4529.1

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