Human Gene LMAN1 (ENST00000251047.6_7) from GENCODE V47lift37
  Description: lectin, mannose binding 1 (from RefSeq NM_005570.4)
Gencode Transcript: ENST00000251047.6_7
Gencode Gene: ENSG00000074695.6_9
Transcript (Including UTRs)
   Position: hg19 chr18:56,995,055-57,026,497 Size: 31,443 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr18:56,998,325-57,026,476 Size: 28,152 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:56,995,055-57,026,497)mRNA (may differ from genome)Protein (510 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LMAN1_HUMAN
DESCRIPTION: RecName: Full=Protein ERGIC-53; AltName: Full=ER-Golgi intermediate compartment 53 kDa protein; AltName: Full=Gp58; AltName: Full=Intracellular mannose-specific lectin MR60; AltName: Full=Lectin mannose-binding 1; Flags: Precursor;
FUNCTION: Mannose-specific lectin. May recognize sugar residues of glycoproteins, glycolipids, or glycosylphosphatidyl inositol anchors and may be involved in the sorting or recycling of proteins, lipids, or both. The LMAN1-MCFD2 complex forms a specific cargo receptor for the ER-to-Golgi transport of selected proteins.
SUBUNIT: Exists both as a covalent disulfide-linked homohexamer, and a complex of three disulfide-linked dimers non-covalently kept together. Interacts with MCFD2.
INTERACTION: O15260:SURF4; NbExp=3; IntAct=EBI-1057738, EBI-1044848;
SUBCELLULAR LOCATION: Endoplasmic reticulum-Golgi intermediate compartment membrane; Single-pass type I membrane protein. Golgi apparatus membrane; Single-pass membrane protein. Endoplasmic reticulum membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: Ubiquitous.
DOMAIN: The FF ER export motif at the C-terminus is not sufficient to support endoplasmic reticulum exit, and needs assistance of Gln-501 for proper recognition of COPII coat components.
PTM: The N-terminal may be partly blocked.
MASS SPECTROMETRY: Mass=54222.91; Method=MALDI; Range=31-510; Source=PubMed:11840567;
DISEASE: Defects in LMAN1 are THE cause of factor V and factor VIII combined deficiency type 1 (F5F8D1) [MIM:227300]; also known as multiple coagulation factor deficiency I (MCFD1). F5F8D1 is an autosomal recessive blood coagulation disorder characterized by bleeding symptoms similar to those in hemophilia or parahemophilia, that are caused by single deficiency of FV or FVIII, respectively. The most common symptoms are epistaxis, menorrhagia, and excessive bleeding during or after trauma. Plasma levels of coagulation factors V and VIII are in the range of 5 to 30% of normal.
SIMILARITY: Contains 1 L-type lectin-like domain.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: LMAN1
Diseases sorted by gene-association score: combined factor v and viii deficiency* (1200), factor v and factor viii, combined deficiency of* (334), bladder papillary transitional cell neoplasm (7), urinary tract papillary transitional cell benign neoplasm (7), multiple sulfatase deficiency (6)
* = Manually curated disease association

-  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: 47.67 RPKM in Cells - Cultured fibroblasts
Total median expression: 844.43 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 0.00210.000 Picture PostScript Text
3' UTR -780.103270-0.239 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
IPR008985 - ConA-like_lec_gl_sf
IPR013320 - ConA-like_subgrp
IPR005052 - Lectin_leg

Pfam Domains:
PF03388 - Legume-like lectin family
PF18483 - Bacterial lectin

SCOP Domains:
47095 - HMG-box
159245 - AttH-like
49899 - Concanavalin A-like lectins/glucanases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3A4U - X-ray MuPIT 3LCP - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P49257
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0005537 mannose binding
GO:0030246 carbohydrate binding
GO:0046872 metal ion binding
GO:0051082 unfolded protein binding

Biological Process:
GO:0006457 protein folding
GO:0006888 ER to Golgi vesicle-mediated transport
GO:0007029 endoplasmic reticulum organization
GO:0007030 Golgi organization
GO:0007596 blood coagulation
GO:0010638 positive regulation of organelle organization
GO:0015031 protein transport
GO:0016192 vesicle-mediated transport
GO:0048208 COPII vesicle coating
GO:1903215 negative regulation of protein targeting to mitochondrion
GO:0032527 protein exit from endoplasmic reticulum
GO:0034498 early endosome to Golgi transport

Cellular Component:
GO:0000139 Golgi membrane
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005793 endoplasmic reticulum-Golgi intermediate compartment
GO:0005794 Golgi apparatus
GO:0012507 ER to Golgi transport vesicle membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030017 sarcomere
GO:0030134 ER to Golgi transport vesicle
GO:0033116 endoplasmic reticulum-Golgi intermediate compartment membrane
GO:0044220 host cell perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  LF211080 - JP 2014500723-A/18583: Polycomb-Associated Non-Coding RNAs.
LP895372 - Sequence 236 from Patent EP3253886.
X71661 - H.sapiens ERGIC-53 mRNA.
U09716 - Human mannose-specific lectin (MR60) mRNA, complete cds.
BC032330 - Homo sapiens lectin, mannose-binding, 1, mRNA (cDNA clone MGC:40275 IMAGE:5167524), complete cds.
AK223208 - Homo sapiens mRNA for lectin, mannose-binding, 1 precursor variant, clone: SPL01860.
AK312869 - Homo sapiens cDNA, FLJ93313, highly similar to Homo sapiens lectin, mannose-binding, 1 (LMAN1), mRNA.
DQ891254 - Synthetic construct clone IMAGE:100003884; FLH178268.01X; RZPDo839B03128D lectin, mannose-binding, 1 (LMAN1) gene, encodes complete protein.
DQ894440 - Synthetic construct Homo sapiens clone IMAGE:100008900; FLH178264.01L; RZPDo839B03127D lectin, mannose-binding, 1 (LMAN1) gene, encodes complete protein.
AK225108 - Homo sapiens mRNA for lectin, mannose-binding, 1 precursor variant, clone: CAS10958.
AK225111 - Homo sapiens mRNA for lectin, mannose-binding, 1 precursor variant, clone: CAS11249.
BC017858 - Homo sapiens lectin, mannose-binding, 1, mRNA (cDNA clone IMAGE:4277970), partial cds.
BC008401 - Homo sapiens lectin, mannose-binding, 1, mRNA (cDNA clone IMAGE:4295261), with apparent retained intron.
MA446657 - JP 2018138019-A/18583: Polycomb-Associated Non-Coding RNAs.
AK025773 - Homo sapiens cDNA: FLJ22120 fis, clone HEP18874.
LF343785 - JP 2014500723-A/151288: Polycomb-Associated Non-Coding RNAs.
LF343786 - JP 2014500723-A/151289: Polycomb-Associated Non-Coding RNAs.
LF343787 - JP 2014500723-A/151290: Polycomb-Associated Non-Coding RNAs.
LF343788 - JP 2014500723-A/151291: Polycomb-Associated Non-Coding RNAs.
LF343789 - JP 2014500723-A/151292: Polycomb-Associated Non-Coding RNAs.
LF343790 - JP 2014500723-A/151293: Polycomb-Associated Non-Coding RNAs.
LF343791 - JP 2014500723-A/151294: Polycomb-Associated Non-Coding RNAs.
LF343792 - JP 2014500723-A/151295: Polycomb-Associated Non-Coding RNAs.
LF343793 - JP 2014500723-A/151296: Polycomb-Associated Non-Coding RNAs.
JD506531 - Sequence 487555 from Patent EP1572962.
JD102511 - Sequence 83535 from Patent EP1572962.
JD284245 - Sequence 265269 from Patent EP1572962.
JD110295 - Sequence 91319 from Patent EP1572962.
JD449237 - Sequence 430261 from Patent EP1572962.
LF343794 - JP 2014500723-A/151297: Polycomb-Associated Non-Coding RNAs.
LF343795 - JP 2014500723-A/151298: Polycomb-Associated Non-Coding RNAs.
LF343796 - JP 2014500723-A/151299: Polycomb-Associated Non-Coding RNAs.
LF343797 - JP 2014500723-A/151300: Polycomb-Associated Non-Coding RNAs.
JD249712 - Sequence 230736 from Patent EP1572962.
JD039552 - Sequence 20576 from Patent EP1572962.
JD303365 - Sequence 284389 from Patent EP1572962.
JD280883 - Sequence 261907 from Patent EP1572962.
JD244892 - Sequence 225916 from Patent EP1572962.
JD126341 - Sequence 107365 from Patent EP1572962.
JD498777 - Sequence 479801 from Patent EP1572962.
JD313037 - Sequence 294061 from Patent EP1572962.
LF343798 - JP 2014500723-A/151301: Polycomb-Associated Non-Coding RNAs.
LF343799 - JP 2014500723-A/151302: Polycomb-Associated Non-Coding RNAs.
LF343803 - JP 2014500723-A/151306: Polycomb-Associated Non-Coding RNAs.
LF343806 - JP 2014500723-A/151309: Polycomb-Associated Non-Coding RNAs.
LF343807 - JP 2014500723-A/151310: Polycomb-Associated Non-Coding RNAs.
LF343808 - JP 2014500723-A/151311: Polycomb-Associated Non-Coding RNAs.
LF343809 - JP 2014500723-A/151312: Polycomb-Associated Non-Coding RNAs.
LF343810 - JP 2014500723-A/151313: Polycomb-Associated Non-Coding RNAs.
MA579362 - JP 2018138019-A/151288: Polycomb-Associated Non-Coding RNAs.
MA579363 - JP 2018138019-A/151289: Polycomb-Associated Non-Coding RNAs.
MA579364 - JP 2018138019-A/151290: Polycomb-Associated Non-Coding RNAs.
MA579365 - JP 2018138019-A/151291: Polycomb-Associated Non-Coding RNAs.
MA579366 - JP 2018138019-A/151292: Polycomb-Associated Non-Coding RNAs.
MA579367 - JP 2018138019-A/151293: Polycomb-Associated Non-Coding RNAs.
MA579368 - JP 2018138019-A/151294: Polycomb-Associated Non-Coding RNAs.
MA579369 - JP 2018138019-A/151295: Polycomb-Associated Non-Coding RNAs.
MA579370 - JP 2018138019-A/151296: Polycomb-Associated Non-Coding RNAs.
MA579371 - JP 2018138019-A/151297: Polycomb-Associated Non-Coding RNAs.
MA579372 - JP 2018138019-A/151298: Polycomb-Associated Non-Coding RNAs.
MA579373 - JP 2018138019-A/151299: Polycomb-Associated Non-Coding RNAs.
MA579374 - JP 2018138019-A/151300: Polycomb-Associated Non-Coding RNAs.
MA579375 - JP 2018138019-A/151301: Polycomb-Associated Non-Coding RNAs.
MA579376 - JP 2018138019-A/151302: Polycomb-Associated Non-Coding RNAs.
MA579380 - JP 2018138019-A/151306: Polycomb-Associated Non-Coding RNAs.
MA579383 - JP 2018138019-A/151309: Polycomb-Associated Non-Coding RNAs.
MA579384 - JP 2018138019-A/151310: Polycomb-Associated Non-Coding RNAs.
MA579385 - JP 2018138019-A/151311: Polycomb-Associated Non-Coding RNAs.
MA579386 - JP 2018138019-A/151312: Polycomb-Associated Non-Coding RNAs.
MA579387 - JP 2018138019-A/151313: Polycomb-Associated Non-Coding RNAs.
LF343811 - JP 2014500723-A/151314: Polycomb-Associated Non-Coding RNAs.
AK301244 - Homo sapiens cDNA FLJ57897 complete cds, highly similar to ERGIC-53 protein precursor.
LF343812 - JP 2014500723-A/151315: Polycomb-Associated Non-Coding RNAs.
LF343813 - JP 2014500723-A/151316: Polycomb-Associated Non-Coding RNAs.
LF343815 - JP 2014500723-A/151318: Polycomb-Associated Non-Coding RNAs.
LF343816 - JP 2014500723-A/151319: Polycomb-Associated Non-Coding RNAs.
LF343817 - JP 2014500723-A/151320: Polycomb-Associated Non-Coding RNAs.
MA579388 - JP 2018138019-A/151314: Polycomb-Associated Non-Coding RNAs.
MA579389 - JP 2018138019-A/151315: Polycomb-Associated Non-Coding RNAs.
MA579390 - JP 2018138019-A/151316: Polycomb-Associated Non-Coding RNAs.
MA579392 - JP 2018138019-A/151318: Polycomb-Associated Non-Coding RNAs.
MA579393 - JP 2018138019-A/151319: Polycomb-Associated Non-Coding RNAs.
MA579394 - JP 2018138019-A/151320: Polycomb-Associated Non-Coding RNAs.

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

Protein P49257 (Reactome details) participates in the following event(s):

R-HSA-5694431 Hexameric LMAN1:MCFD2 bind glycosylated Factor V and VIII precursors
R-HSA-947991 Transport of glycoproteins with Man8 (or Man9) N-glycans to the Golgi
R-HSA-5694428 LMAN family proteins bind glycosylated cargo
R-HSA-5694522 Inner coat assembly and cargo binding
R-HSA-5694527 Loss of SAR1B GTPase
R-HSA-5694446 BET1:GOSR2:STX5 bind v-SNARES on tethered vesicle
R-HSA-5694441 CSNK1D phosphorylates SEC23
R-HSA-5694439 COPII coat binds TRAPPCII and RAB1:GDP
R-HSA-203973 Vesicle budding
R-HSA-5694417 SEC16 complex binds SAR1B:GTP:SEC23:SEC24
R-HSA-5694418 RAB1:GTP binds USO1 and GORASP1:GOLGA2
R-HSA-5694409 Nucleotide exchange on RAB1
R-HSA-204008 SEC31:SEC13 and v-SNARE recruitment
R-HSA-5694530 Cargo concentration in the ER
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-204005 COPII-mediated vesicle transport
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: ENST00000251047.1, ENST00000251047.2, ENST00000251047.3, ENST00000251047.4, ENST00000251047.5, ERGIC53, F5F8D, LMAN1_HUMAN, NM_005570, P49257, Q12895, Q8N5I7, Q9UQG1, Q9UQG2, Q9UQG3, Q9UQG4, Q9UQG5, Q9UQG6, Q9UQG7, Q9UQG8, Q9UQG9, Q9UQH0, Q9UQH1, Q9UQH2, uc317fcv.1, uc317fcv.2
UCSC ID: ENST00000251047.6_7
RefSeq Accession: NM_005570.4
Protein: P49257 (aka LMAN1_HUMAN or ER53_HUMAN)

-  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.