Human Gene RAB11B (uc002mju.4) Description and Page Index
  Description: Homo sapiens RAB11B, member RAS oncogene family (RAB11B), mRNA.
RefSeq Summary (NM_004218): The Ras superfamily of small GTP-binding proteins, which includes the Ras (see MIM 190020), Ral (see MIM 179550), Rho (see MIM 165390), Rap (see MIM 179520), and Rab (see MIM 179508) families, is involved in controlling a diverse set of essential cellular functions. The Rab family, including RAB11B, appears to play a critical role in regulating exocytotic and endocytotic pathways (summary by Zhu et al., 1994 [PubMed 7811277]).[supplied by OMIM, Nov 2010]. 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 :: SRR3476690.185080.1, SRR3476690.808131.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000328024.11/ ENSP00000333547.5 RefSeq Select criteria :: based on single protein-coding transcript ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr19:8,455,205-8,469,317 Size: 14,113 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr19:8,455,301-8,468,442 Size: 13,142 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:8,455,205-8,469,317)mRNA (may differ from genome)Protein (218 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RB11B_HUMAN
DESCRIPTION: RecName: Full=Ras-related protein Rab-11B; AltName: Full=GTP-binding protein YPT3; Flags: Precursor;
FUNCTION: GTPase that modulates endosomal trafficking. Acts as a major regulator of membrane delivery during cytokinesis (By similarity).
SUBUNIT: Interacts with RAB11FIP1, RAB11FIP2, RAB11FIP3 and RAB11FIP4.
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential).
SIMILARITY: Belongs to the small GTPase superfamily. Rab family.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RAB11B
CDC HuGE Published Literature: RAB11B
Positive Disease Associations: Cholesterol, HDL
Related Studies:
  1. Cholesterol, HDL
    Sekar Kathiresan et al. Nature genetics 2009, Common variants at 30 loci contribute to polygenic dyslipidemia., Nature genetics. [PubMed 19060906]

-  MalaCards Disease Associations
  MalaCards Gene Search: RAB11B
Diseases sorted by gene-association score: hypotrichosis 3 (3), rectum adenocarcinoma (3), cystic fibrosis (2)

-  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: 132.97 RPKM in Thyroid
Total median expression: 3142.26 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 -47.9096-0.499 Picture PostScript Text
3' UTR -328.79875-0.376 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
IPR005225 - Small_GTP-bd_dom
IPR001806 - Small_GTPase
IPR003579 - Small_GTPase_Rab_type

Pfam Domains:
PF00025 - ADP-ribosylation factor family
PF00071 - Ras family
PF01926 - 50S ribosome-binding GTPase
PF08477 - Ras of Complex, Roc, domain of DAPkinase

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

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

2F9L
- X-ray MuPIT

2F9M
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q15907
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 orthologGenome Browser
Gene DetailsGene Details   Gene Details
Gene SorterGene Sorter   Gene Sorter
 RGDEnsembl  SGD
 Protein SequenceProtein Sequence  Protein Sequence
 AlignmentAlignment  Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0019003 GDP binding
GO:0031489 myosin V binding
GO:0045296 cadherin binding

Biological Process:
GO:0001881 receptor recycling
GO:0015031 protein transport
GO:0032402 melanosome transport
GO:0033572 transferrin transport
GO:0035773 insulin secretion involved in cellular response to glucose stimulus
GO:0043687 post-translational protein modification
GO:0044070 regulation of anion transport
GO:0045054 constitutive secretory pathway
GO:0045055 regulated exocytosis
GO:0045056 transcytosis
GO:0071468 cellular response to acidic pH
GO:0090150 establishment of protein localization to membrane
GO:1990126 retrograde transport, endosome to plasma membrane
GO:2000008 regulation of protein localization to cell surface
GO:2001135 regulation of endocytic recycling

Cellular Component:
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005829 cytosol
GO:0008021 synaptic vesicle
GO:0016020 membrane
GO:0030054 cell junction
GO:0030670 phagocytic vesicle membrane
GO:0030672 synaptic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0045202 synapse
GO:0045335 phagocytic vesicle
GO:0055037 recycling endosome
GO:0055038 recycling endosome membrane
GO:0070062 extracellular exosome
GO:0098993 anchored component of synaptic vesicle membrane


-  Descriptions from all associated GenBank mRNAs
  LF385185 - JP 2014500723-A/192688: Polycomb-Associated Non-Coding RNAs.
AK310573 - Homo sapiens cDNA, FLJ17615.
EF560724 - Homo sapiens clone DKFZp564C1023 RAB11B protein (RAB11B) mRNA, complete cds.
AK312994 - Homo sapiens cDNA, FLJ93455, highly similar to Homo sapiens RAB11B, member RAS oncogene family (RAB11B), mRNA.
AK297498 - Homo sapiens cDNA FLJ61134 complete cds, highly similar to Ras-related protein Rab-11B.
BX647356 - Homo sapiens mRNA; cDNA DKFZp686E23256 (from clone DKFZp686E23256).
AK225642 - Homo sapiens mRNA for RAB11B, member RAS oncogene family variant, clone: SPL07754.
AK225036 - Homo sapiens mRNA for RAB11B, member RAS oncogene family variant, clone: adKA03145.
D38516 - Homo sapiens Rab11B mRNA.
X79780 - H.sapiens YPT3 mRNA.
BC110081 - Homo sapiens RAB11B, member RAS oncogene family, mRNA (cDNA clone MGC:133246 IMAGE:40035112), complete cds.
AB590872 - Synthetic construct DNA, clone: pFN21AE1715, Homo sapiens RAB11B gene for RAB11B, member RAS oncogene family, without stop codon, in Flexi system.
CR541691 - Homo sapiens full open reading frame cDNA clone RZPDo834D1128D for gene RAB11B, RAB11B, member RAS oncogene family; complete cds, without stopcodon.
BT019535 - Homo sapiens RAB11B, member RAS oncogene family mRNA, complete cds.
BT019536 - Homo sapiens RAB11B, member RAS oncogene family mRNA, complete cds.
KJ897984 - Synthetic construct Homo sapiens clone ccsbBroadEn_07378 RAB11B gene, encodes complete protein.
GQ129216 - Synthetic construct Homo sapiens clone HAIB:100068640; DKFZo004A0136 RAB11B, member RAS oncogene family protein (RAB11B) gene, partial cds.
AF498947 - Homo sapiens small GTP binding protein RAB11B (RAB11B) mRNA, complete cds.
CR536494 - Homo sapiens full open reading frame cDNA clone RZPDo834G1017D for gene RAB11B, RAB11B, member RAS oncogene family; complete cds, incl. stopcodon.
GQ129215 - Synthetic construct Homo sapiens clone HAIB:100068544; DKFZo008A0135 RAB11B, member RAS oncogene family protein (RAB11B) gene, complete cds.
LF211221 - JP 2014500723-A/18724: Polycomb-Associated Non-Coding RNAs.
LF211219 - JP 2014500723-A/18722: Polycomb-Associated Non-Coding RNAs.
LF341188 - JP 2014500723-A/148691: Polycomb-Associated Non-Coding RNAs.
LF344660 - JP 2014500723-A/152163: Polycomb-Associated Non-Coding RNAs.
LF341185 - JP 2014500723-A/148688: Polycomb-Associated Non-Coding RNAs.
LF341184 - JP 2014500723-A/148687: Polycomb-Associated Non-Coding RNAs.
LF344659 - JP 2014500723-A/152162: Polycomb-Associated Non-Coding RNAs.
LF341181 - JP 2014500723-A/148684: Polycomb-Associated Non-Coding RNAs.
LF344658 - JP 2014500723-A/152161: Polycomb-Associated Non-Coding RNAs.
LF341178 - JP 2014500723-A/148681: Polycomb-Associated Non-Coding RNAs.
LF344657 - JP 2014500723-A/152160: Polycomb-Associated Non-Coding RNAs.
LF205516 - JP 2014500723-A/13019: Polycomb-Associated Non-Coding RNAs.
JD479102 - Sequence 460126 from Patent EP1572962.
LF321422 - JP 2014500723-A/128925: Polycomb-Associated Non-Coding RNAs.
LF341177 - JP 2014500723-A/148680: Polycomb-Associated Non-Coding RNAs.
JD457079 - Sequence 438103 from Patent EP1572962.
LF341176 - JP 2014500723-A/148679: Polycomb-Associated Non-Coding RNAs.
LF321423 - JP 2014500723-A/128926: Polycomb-Associated Non-Coding RNAs.
LF344656 - JP 2014500723-A/152159: Polycomb-Associated Non-Coding RNAs.
JD178330 - Sequence 159354 from Patent EP1572962.
LF341175 - JP 2014500723-A/148678: Polycomb-Associated Non-Coding RNAs.
LF321424 - JP 2014500723-A/128927: Polycomb-Associated Non-Coding RNAs.
LF344655 - JP 2014500723-A/152158: Polycomb-Associated Non-Coding RNAs.
JD125888 - Sequence 106912 from Patent EP1572962.
JD519913 - Sequence 500937 from Patent EP1572962.
MA620762 - JP 2018138019-A/192688: Polycomb-Associated Non-Coding RNAs.
MA580237 - JP 2018138019-A/152163: Polycomb-Associated Non-Coding RNAs.
MA580236 - JP 2018138019-A/152162: Polycomb-Associated Non-Coding RNAs.
MA580235 - JP 2018138019-A/152161: Polycomb-Associated Non-Coding RNAs.
MA580234 - JP 2018138019-A/152160: Polycomb-Associated Non-Coding RNAs.
MA556999 - JP 2018138019-A/128925: Polycomb-Associated Non-Coding RNAs.
MA557000 - JP 2018138019-A/128926: Polycomb-Associated Non-Coding RNAs.
MA580233 - JP 2018138019-A/152159: Polycomb-Associated Non-Coding RNAs.
MA557001 - JP 2018138019-A/128927: Polycomb-Associated Non-Coding RNAs.
MA580232 - JP 2018138019-A/152158: Polycomb-Associated Non-Coding RNAs.
MA446798 - JP 2018138019-A/18724: Polycomb-Associated Non-Coding RNAs.
MA446796 - JP 2018138019-A/18722: Polycomb-Associated Non-Coding RNAs.
MA576765 - JP 2018138019-A/148691: Polycomb-Associated Non-Coding RNAs.
MA576762 - JP 2018138019-A/148688: Polycomb-Associated Non-Coding RNAs.
MA576761 - JP 2018138019-A/148687: Polycomb-Associated Non-Coding RNAs.
MA576758 - JP 2018138019-A/148684: Polycomb-Associated Non-Coding RNAs.
MA576755 - JP 2018138019-A/148681: Polycomb-Associated Non-Coding RNAs.
MA441093 - JP 2018138019-A/13019: Polycomb-Associated Non-Coding RNAs.
MA576754 - JP 2018138019-A/148680: Polycomb-Associated Non-Coding RNAs.
MA576753 - JP 2018138019-A/148679: Polycomb-Associated Non-Coding RNAs.
MA576752 - JP 2018138019-A/148678: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04144 - Endocytosis
hsa04962 - Vasopressin-regulated water reabsorption

Reactome (by CSHL, EBI, and GO)

Protein Q15907 (Reactome details) participates in the following event(s):

R-HSA-8854759 TBC1D14 binds RAB11 and ULK1
R-HSA-8870466 RGGT:CHM binds RABs
R-HSA-8870469 RGGT geranylgeranylates RAB proteins
R-HSA-8854214 TBC/RABGAPs
R-HSA-9007101 Rab regulation of trafficking
R-HSA-8873719 RAB geranylgeranylation
R-HSA-199991 Membrane Trafficking
R-HSA-597592 Post-translational protein modification
R-HSA-5653656 Vesicle-mediated transport
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B2R7I4, D6W671, NM_004218, NP_004209, Q15907, Q2YDT2, Q8NI07, RB11B_HUMAN, YPT3
UCSC ID: uc002mju.4
RefSeq Accession: NM_004218
Protein: Q15907 (aka RB11B_HUMAN or R11B_HUMAN)
CCDS: CCDS12201.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_004218.3
exon count: 5CDS single in 3' UTR: no RNA size: 1635
ORF size: 657CDS single in intron: no Alignment % ID: 99.94
txCdsPredict score: 1514.00frame shift in genome: no % Coverage: 99.57
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.