Human Gene LNX2 (uc001url.4) Description and Page Index
  Description: Homo sapiens ligand of numb-protein X 2 (LNX2), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr13:28,120,050-28,194,720 Size: 74,671 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr13:28,122,472-28,155,840 Size: 33,369 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:28,120,050-28,194,720)mRNA (may differ from genome)Protein (690 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: LNX2_HUMAN
DESCRIPTION: RecName: Full=Ligand of Numb protein X 2; AltName: Full=Numb-binding protein 2; AltName: Full=PDZ domain-containing RING finger protein 1;
SUBUNIT: Interacts with the phosphotyrosine interaction domain of NUMB (By similarity).
DOMAIN: The NPXY motif is required for the interaction with the PID domain of NUMB. It is however not sufficient.
SIMILARITY: Contains 4 PDZ (DHR) domains.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=BAD18754.1; Type=Erroneous initiation;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): LNX2
CDC HuGE Published Literature: LNX2
Positive Disease Associations: Myocardial Infarction
Related Studies:
  1. Myocardial Infarction
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: LNX2
Diseases sorted by gene-association score: q fever (9)

-  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: 7.18 RPKM in Pancreas
Total median expression: 164.97 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 -144.80309-0.469 Picture PostScript Text
3' UTR -624.102422-0.258 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
IPR001478 - PDZ
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF00595 - PDZ domain (Also known as DHR or GLGF)
PF13180 - PDZ domain
PF13445 - RING-type zinc-finger
PF13639 - Ring finger domain
PF13920 - Zinc finger, C3HC4 type (RING finger)
PF13923 - Zinc finger, C3HC4 type (RING finger)

SCOP Domains:
50156 - PDZ domain-like
57850 - RING/U-box

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

2VWR
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q8N448
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:0005515 protein binding
GO:0030165 PDZ domain binding
GO:0046872 metal ion binding

Biological Process:
GO:0051260 protein homooligomerization


-  Descriptions from all associated GenBank mRNAs
  AK095319 - Homo sapiens cDNA FLJ38000 fis, clone CTONG2012050, moderately similar to Mus musculus LNXp80 (LNX) mRNA.
BC036755 - Homo sapiens ligand of numb-protein X 2, mRNA (cDNA clone MGC:46315 IMAGE:5541168), complete cds.
AK313394 - Homo sapiens cDNA, FLJ93928, highly similar to Homo sapiens PDZ domain containing ring finger 1 (PDZRN1), mRNA.
AK022995 - Homo sapiens cDNA FLJ12933 fis, clone NT2RP2004962.
JD304724 - Sequence 285748 from Patent EP1572962.
JD214084 - Sequence 195108 from Patent EP1572962.
JD166721 - Sequence 147745 from Patent EP1572962.
JD410811 - Sequence 391835 from Patent EP1572962.
JD516891 - Sequence 497915 from Patent EP1572962.
JD048084 - Sequence 29108 from Patent EP1572962.
JD258585 - Sequence 239609 from Patent EP1572962.
JD356709 - Sequence 337733 from Patent EP1572962.
AK172771 - Homo sapiens cDNA FLJ23932 fis, clone COL06772.
JD280471 - Sequence 261495 from Patent EP1572962.
JD126811 - Sequence 107835 from Patent EP1572962.
JD110331 - Sequence 91355 from Patent EP1572962.
JD299048 - Sequence 280072 from Patent EP1572962.
JD299521 - Sequence 280545 from Patent EP1572962.
JD433040 - Sequence 414064 from Patent EP1572962.
JD557012 - Sequence 538036 from Patent EP1572962.
JD551765 - Sequence 532789 from Patent EP1572962.
KJ895877 - Synthetic construct Homo sapiens clone ccsbBroadEn_05271 LNX2 gene, encodes complete protein.
AB587457 - Synthetic construct DNA, clone: pF1KB8020, Homo sapiens LNX2 gene for ligand of numb-protein X 2, without stop codon, in Flexi system.
JD471353 - Sequence 452377 from Patent EP1572962.
JD203280 - Sequence 184304 from Patent EP1572962.
JD557859 - Sequence 538883 from Patent EP1572962.
JD278671 - Sequence 259695 from Patent EP1572962.
JD540278 - Sequence 521302 from Patent EP1572962.
JD157024 - Sequence 138048 from Patent EP1572962.
JD264478 - Sequence 245502 from Patent EP1572962.
JD311298 - Sequence 292322 from Patent EP1572962.
JD331526 - Sequence 312550 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: LNX2_HUMAN, NM_153371, NP_699202, PDZRN1, Q5W0P0, Q6ZMH2, Q8N448, Q96SH4
UCSC ID: uc001url.4
RefSeq Accession: NM_153371
Protein: Q8N448 (aka LNX2_HUMAN)
CCDS: CCDS9323.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_153371.3
exon count: 10CDS single in 3' UTR: no RNA size: 4804
ORF size: 2073CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4337.00frame shift in genome: no % Coverage: 100.00
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.