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SMCP Gene

protein-coding   GIFtS: 49
GCID: GC01P152850

Sperm Mitochondria-Associated Cysteine-Rich Protein

(Previous name: mitochondrial capsule selenoprotein)
(Previous symbol: MCSP)
  See SMCP-related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Sperm Mitochondria-Associated Cysteine-Rich Protein1 2
MCSP1 2 3 5
MCS2 3 5
Mitochondrial Capsule Selenoprotein1 2
HSMCSGEN12
Sperm Mitochondrial-Associated Cysteine-Rich Protein2

External Ids:    HGNC: 69621   Entrez Gene: 41842   Ensembl: ENSG000001632067   OMIM: 6011485   UniProtKB: P499013   

Export aliases for SMCP gene to outside databases

Previous GC identifers: GC01P149664 GC01P151117 GC01P124213


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SMCP Gene:
Sperm mitochondria differ in morphology and subcellular localization from those of somatic cells. They are
elongated, flattened, and arranged circumferentially to form a helical coiled sheath in the midpiece of the sperm
flagellum. The protein encoded by this gene localizes to the capsule associated with the mitochondrial outer
membranes and is thought to function in the organization and stabilization of the helical structure of the
sperm's mitochondrial sheath. (provided by RefSeq, Jul 2008)

GeneCards Summary for SMCP Gene:
SMCP (sperm mitochondria-associated cysteine-rich protein) is a protein-coding gene. Diseases associated with SMCP include hard palate cancer.

UniProtKB/Swiss-Prot: MCSP_HUMAN, P49901
Function: Involved in sperm motility. Its absence is associated with genetic background dependent male
infertility. Infertility may be due to reduced sperm motility in the female reproductive tract and inability to
penetrate the oocyte zona pellucida (By similarity)

Gene Wiki entry for SMCP Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_004487.20  
Regulatory elements:
   Regulatory transcription factor binding sites in the SMCP gene promoter:
         SRF   c-Fos   AML1a   AP-1   Tal-1   SRF (504 AA)   E47   AREB6   c-Jun   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSMCP promoter sequence
   Search Chromatin IP Primers for SMCP

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SMCP


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q21.3   Ensembl cytogenetic band:  1q21.3   HGNC cytogenetic band: 1q21.3

SMCP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SMCP gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P152850:  view genomic region     (about GC identifiers)

Start:
152,850,793 bp from pter      End:
152,857,523 bp from pter
Size:
6,731 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
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UniProtKB/Swiss-Prot: MCSP_HUMAN, P49901 (See protein sequence)
Recommended Name: Sperm mitochondrial-associated cysteine-rich protein  
Size: 116 amino acids; 12767 Da
Developmental stage: Expressed in postmeiotic cells
Caution: Was originally (PubMed:8833144) thought to be a selenoprotein and was known as sperm mitochondrial
capsule selenoprotein
Secondary accessions: Q96A42

Explore the universe of human proteins at neXtProt for SMCP: NX_P49901

Explore proteomics data for SMCP at MOPED


See SMCP Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_109588.2  
ENSEMBL proteins: 
 ENSP00000357754  

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: P49901


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Molecular Function:

     UniProtKB/Swiss-Prot Summary: MCSP_HUMAN, P49901
Function: Involved in sperm motility. Its absence is associated with genetic background dependent male
infertility. Infertility may be due to reduced sperm motility in the female reproductive tract and inability to
penetrate the oocyte zona pellucida (By similarity)

     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003674molecular_function ND--
     
Find genes that share ontologies with SMCP           About GenesLikeMe


Phenotypes:
     1 GenomeRNAi human phenotype for SMCP:
 Decreased Wnt reporter activit 

     1 MGI mutant phenotype (inferred from 1 allele(MGI details for Smcp):
 reproductive system 

Find genes that share phenotypes with SMCP           About GenesLikeMe

Animal Models:
     MGI mouse knock-out Smcptm1Wen for SMCP

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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
MCSP_HUMAN, P49901: Cytoplasm. Mitochondrion membrane; Peripheral membrane protein; Cytoplasmic side
(Potential). Note=Becomes associated with the spermatid mitochondrion capsule at step 16 of spermatogenesis (By
similarity)
Subcellular locations from COMPARTMENTS: 

CompartmentConfidence
mitochondrion5
cytosol3
extracellular3

Gene Ontology (GO): 3 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005737cytoplasm ISS--
GO:0005739mitochondrion ISS--
GO:0031966mitochondrial membrane IEA--

Find genes that share ontologies with SMCP           About GenesLikeMe


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SMCP
Interactions:

    GeneGlobe Interaction Network for SMCP

STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

2 Interacting proteins for SMCP (P499012, 3 ENSP000003577544) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
KRTAP4-12Q9BQ662, 3, ENSP000003775824MINT-67808 I2D: score=5 STRING: ENSP00000377582
PLSCR1O151622, 3, ENSP000003454944MINT-68291 I2D: score=5 STRING: ENSP00000345494
About this table

Gene Ontology (GO): 2 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0007341penetration of zona pellucida ISS--
GO:0030317sperm motility ISS--

Find genes that share ontologies with SMCP           About GenesLikeMe



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for SMCP (MCSP)

2 Novoseek inferred chemical compound relationships for SMCP gene    About this table
Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
cystine 61.7 1 16159880 (1)
cysteine 40.9 10 16159880 (2), 16325371 (2), 15286030 (1)



Find genes that share compounds with SMCP           About GenesLikeMe



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
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REFSEQ mRNAs for SMCP gene: 
NM_030663.2  

Unigene Cluster for SMCP:

Sperm mitochondria-associated cysteine-rich protein
Hs.111850  [show with all ESTs]
Unigene Representative Sequence: BU570798
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000368765(uc001fat.3)
miRNA
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  QuantiFast Probe-based Assays in human, mouse, rat SMCP

Additional mRNA sequence: 

AK312020.1 BC014593.2 BC016744.2 X89960.1 

2 DOTS entries:

DT.455436  DT.95369254 

Selected AceView cDNA sequences (see all 39):

NM_030663 AI688465 AA909252 BX119752 AA383237 AA383236 AI138563 AI142404 
BE501372 BC014593 BC016744 BU852805 X89960 BX355591 AI215620 BG720789 
BI826269 AI205769 BX365518 BU568249 BX339976 AA551172 AA609976 BG723902 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SMCP expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: CCTTTCACTT
SMCP Expression
About this image


SMCP expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database
 
 Testis (Reproductive System)    fully expand to see all 4 entries
         Mature Sertoli Cells Seminiferous Tubules
         Testis Interstitium
SMCP Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SMCP Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.111850

UniProtKB/Swiss-Prot: MCSP_HUMAN, P49901
Tissue specificity: Testis. Is selectively expressed in the spermatids of seminiferous tubules

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In Situ
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of human and mouse.

Orthologs for SMCP gene from Selected species (see all 3)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Smcp5 sperm mitochondria-associated cysteine-rich protein   --   3 (40.14 cM) 92583880 


ENSEMBL Gene Tree for SMCP (if available)
TreeFam Gene Tree for SMCP (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SMCP (see all 228)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 1 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs23393841,2
C,F,A--152848838(+) ATCTCC/TGTATA 1 -- us2k12Minor allele frequency- T:0.19WA 120
rs48454891,2
C,F,A,H--152848839(+) TCTCCG/ATATAT 1 -- us2k18Minor allele frequency- A:0.38NA WA EA 372
rs1885193681,2
--152848849(+) TACATG/TCTTTT 1 -- us2k10--------
rs118001101,2
C,F,H--152848881(+) ACATAT/ATGTTT 1 -- us2k110Minor allele frequency- A:0.11NS EA WA NA CSA 670
rs354562821,2
C,F--152848910(+) ATTACA/GTAGTT 1 -- us2k13Minor allele frequency- G:0.33NA 6
rs1388678351,2
--152849078(+) ATTTGC/TTGCCA 1 -- us2k10--------
rs1814079581,2
--152849111(+) TCTCAC/TTGATC 1 -- us2k10--------
rs1165043741,2
C,F--152849214(+) CTCTCC/TGTACT 1 -- us2k11Minor allele frequency- T:0.03WA 118
rs1431113761,2
C--152849247(+) TTATAA/GATTAA 1 -- us2k10--------
rs1852991691,2
--152849266(+) TCCCAA/GCTACA 1 -- us2k10--------

HapMap Linkage Disequilibrium report for SMCP (152850793 - 152857523 bp)

Structural Variations
     Database of Genomic Variants (DGV) 3 variations for SMCP:    About this table    
Variant IDTypeSubtypePubMed ID
nsv831592CNV Gain17160897
esv7910CNV Gain19470904
dgv131e1CNV Complex17122850

Site Specific Mutation Identification with PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 601148    OMIM disorders: --

1 disease for SMCP:    
About MalaCards
hard palate cancer

2 diseases from the University of Copenhagen DISEASES database for SMCP:
Cleft palate     Hard palate cancer

Find genes that share disorders with SMCP           About GenesLikeMe

Genetic Association Database (GAD): SMCP

Export disorders for SMCP gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for SMCP gene, integrated from 10 sources (see all 18):
(articles sorted by number of sources associating them with SMCP)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Isolation, expression, and chromosomal localization of the human mitochondrial capsule selenoprotein gene (MCSP). (PubMed id 8833144)1, 2, 3, 9 Aho H....Adham I.M. (Genomics 1996)
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  3. Comparative genomics of the sperm mitochondria-associated cysteine-rich protein gene. (PubMed id 16325371)1, 9 Hawthorne S.K....Kleene K.C. (Genomics 2006)
  4. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
  5. Non-invasive genetic diagnosis of male infertility using spermatozoal RNA: KLHL10 mutations in oligozoospermic patients impair homodimerization. (PubMed id 17047026)1 Yatsenko A.N....Matzuk M.M. (Hum. Mol. Genet. 2006)
  6. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
  7. Asthenozoospermia in mice with targeted deletion of the sperm mitochondrion-associated cysteine-rich protein (Smcp) gene. (PubMed id 11940662)1 Nayernia K....Engel W. (Mol. Cell. Biol. 2002)
  8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
  9. Mammalian selenium-containing proteins. (PubMed id 11375445)1 Behne D. and Kyriakopoulos A. (Annu. Rev. Nutr. 2001)
  10. Sperm mitochondria-associated cysteine-rich protein (SMCP) is an autoantigen in Lewis rats. (PubMed id 10411523)1 Herr J.C....Flickinger C.J. (Biol. Reprod. 1999)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 4184 HGNC: 6962 AceView: MCSP Ensembl:ENSG00000163206 euGenes: HUgn4184
ECgene: SMCP H-InvDB: SMCP

(According to HUGE)
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(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SMCP Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SMCP gene:
Search GeneIP for patents involving SMCP

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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