Human Gene SRP54 (ENST00000216774.11_6) from GENCODE V47lift37
  Description: signal recognition particle 54, transcript variant 1 (from RefSeq NM_003136.4)
Gencode Transcript: ENST00000216774.11_6
Gencode Gene: ENSG00000100883.13_11
Transcript (Including UTRs)
   Position: hg19 chr14:35,452,198-35,498,773 Size: 46,576 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr14:35,465,916-35,498,358 Size: 32,443 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:35,452,198-35,498,773)mRNA (may differ from genome)Protein (504 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SRP54_HUMAN
DESCRIPTION: RecName: Full=Signal recognition particle 54 kDa protein; Short=SRP54;
FUNCTION: Binds to the signal sequence of presecretory protein when they emerge from the ribosomes and transfers them to TRAM (translocating chain-associating membrane protein).
SUBUNIT: Signal recognition particle consists of a 7S RNA molecule of 300 nucleotides and six protein subunits: SRP72, SRP68, SRP54, SRP19, SRP14 and SRP9. Interacts with RNPS1.
SUBCELLULAR LOCATION: Nucleus speckle. Cytoplasm.
DOMAIN: Has a two domain structure: the G-domain binds GTP; the M- domain binds the 7S RNA in presence of SRP19 and also binds the signal sequence.
SIMILARITY: Belongs to the GTP-binding SRP family. SRP54 subfamily.
WEB RESOURCE: Name=Wikipedia; Note=Signal recognition particle entry; URL="http://en.wikipedia.org/wiki/Signal_recognition_particle";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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: 43.01 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 872.36 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 -105.80257-0.412 Picture PostScript Text
3' UTR -74.60415-0.180 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
IPR003593 - AAA+_ATPase
IPR013822 - Signal_recog_particl_SRP54_hlx
IPR004125 - Signal_recog_particle_SRP54_M
IPR022941 - SRP54
IPR006325 - SRP54_euk
IPR000897 - SRP54_GTPase_dom

Pfam Domains:
PF00448 - SRP54-type protein, GTPase domain
PF02492 - CobW/HypB/UreG, nucleotide-binding domain
PF02881 - SRP54-type protein, helical bundle domain
PF02978 - Signal peptide binding domain

SCOP Domains:
47364 - Domain of the SRP/SRP receptor G-proteins
47446 - Signal peptide-binding domain
52540 - P-loop containing nucleoside triphosphate hydrolases
53795 - PEP carboxykinase-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1MFQ - X-ray MuPIT 1QB2 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P61011
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003723 RNA binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0008144 drug binding
GO:0008312 7S RNA binding
GO:0019003 GDP binding
GO:0030942 endoplasmic reticulum signal peptide binding
GO:0043021 ribonucleoprotein complex binding

Biological Process:
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
GO:0006616 SRP-dependent cotranslational protein targeting to membrane, translocation
GO:0006617 SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition
GO:0042493 response to drug
GO:0045047 protein targeting to ER

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005786 signal recognition particle, endoplasmic reticulum targeting
GO:0005829 cytosol
GO:0016607 nuclear speck
GO:0048500 signal recognition particle
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  AK312853 - Homo sapiens cDNA, FLJ93296, Homo sapiens signal recognition particle 54kDa (SRP54), mRNA.
AK293319 - Homo sapiens cDNA FLJ54343 complete cds, highly similar to Signal recognition particle 54 kDa protein.
AK300824 - Homo sapiens cDNA FLJ50234 complete cds, highly similar to Signal recognition particle 54 kDa protein.
BC003389 - Homo sapiens signal recognition particle 54kDa, mRNA (cDNA clone MGC:5284 IMAGE:3446599), complete cds.
LP895286 - Sequence 150 from Patent EP3253886.
BC000652 - Homo sapiens signal recognition particle 54kDa, mRNA (cDNA clone MGC:1610 IMAGE:3343314), complete cds.
U51920 - Human signal recognition particle (SRP54) mRNA, complete cds.
CU674318 - Synthetic construct Homo sapiens gateway clone IMAGE:100017376 5' read SRP54 mRNA.
KJ905929 - Synthetic construct Homo sapiens clone ccsbBroadEn_15599 SRP54 gene, encodes complete protein.
JF432694 - Synthetic construct Homo sapiens clone IMAGE:100073933 signal recognition particle 54kDa (SRP54) gene, encodes complete protein.
KJ904566 - Synthetic construct Homo sapiens clone ccsbBroadEn_13960 SRP54 gene, encodes complete protein.
JD565325 - Sequence 546349 from Patent EP1572962.

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

Protein P61011 (Reactome details) participates in the following event(s):

R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP)
R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B2R759, B4DUW6, ENST00000216774.1, ENST00000216774.10, ENST00000216774.2, ENST00000216774.3, ENST00000216774.4, ENST00000216774.5, ENST00000216774.6, ENST00000216774.7, ENST00000216774.8, ENST00000216774.9, NM_003136, P13624, P61011, SRP54 , SRP54_HUMAN, uc317cry.1, uc317cry.2
UCSC ID: ENST00000216774.11_6
RefSeq Accession: NM_003136.4
Protein: P61011 (aka SRP54_HUMAN or SR54_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene SRP54:
sds (Shwachman-Diamond Syndrome)

-  Gene Model Information
  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.