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Protein

Sodium channel modifier 1

Gene

SCNM1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Plays a role in RNA splicing, possibly contributing to the recognition of non-consensus donor sites.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri42 – 7433Matrin-typeAdd
BLAST

GO - Molecular functioni

  • enzyme binding Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Sodium channel modifier 1
Gene namesi
Name:SCNM1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:23136. SCNM1.

Subcellular locationi

  • Nucleus By similarity
  • Nucleus speckle By similarity

  • Note: Colocalizes with LUC7L2 and SNRNP70 in nuclear speckles.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134958437.

Polymorphism and mutation databases

BioMutaiSCNM1.
DMDMi74752399.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 230230Sodium channel modifier 1PRO_0000259635Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei144 – 1441PhosphoserineCombined sources
Modified residuei183 – 1831PhosphoserineBy similarity
Modified residuei219 – 2191PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9BWG6.
MaxQBiQ9BWG6.
PaxDbiQ9BWG6.
PRIDEiQ9BWG6.

PTM databases

iPTMnetiQ9BWG6.
PhosphoSiteiQ9BWG6.

Expressioni

Gene expression databases

BgeeiQ9BWG6.
CleanExiHS_SCNM1.
GenevisibleiQ9BWG6. HS.

Organism-specific databases

HPAiHPA052439.
HPA054324.

Interactioni

Subunit structurei

Interacts with LUC7L2 and SNRNP70, which suggests a role as a spliceosome component.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
AESQ081173EBI-748391,EBI-717810
BLZF1Q9H2G93EBI-748391,EBI-2548012
CDR2Q018503EBI-748391,EBI-1181367
CEP44Q9C0F13EBI-748391,EBI-744115
GOLGA2Q083793EBI-748391,EBI-618309
HMG20AQ9NP663EBI-748391,EBI-740641
IKZF1Q134223EBI-748391,EBI-745305
INCA1Q0VD863EBI-748391,EBI-6509505
KRT31Q153233EBI-748391,EBI-948001
KRT38O760153EBI-748391,EBI-1047263
KRTAP10-5P603703EBI-748391,EBI-10172150
KRTAP10-7P604093EBI-748391,EBI-10172290
KRTAP10-8P604103EBI-748391,EBI-10171774
KRTAP10-9P604113EBI-748391,EBI-10172052
LZTS2Q9BRK43EBI-748391,EBI-741037
MEOX2A4D1273EBI-748391,EBI-10172134
MID2Q9UJV3-23EBI-748391,EBI-10172526
MIPOL1Q8TD103EBI-748391,EBI-2548751
MKRN3Q130643EBI-748391,EBI-2340269
NAB2Q157423EBI-748391,EBI-8641936
NOTCH2NLQ7Z3S93EBI-748391,EBI-945833
PDE4DIPQ5VU433EBI-748391,EBI-1105124
PLSCR1O151623EBI-748391,EBI-740019
PNMA1Q8ND903EBI-748391,EBI-302345
PNMA2Q9UL423EBI-748391,EBI-302355
RINT1Q6NUQ13EBI-748391,EBI-726876
RPGRIP1Q96KN73EBI-748391,EBI-1050213
SPERTQ8NA613EBI-748391,EBI-741724
SSX2IPQ9Y2D83EBI-748391,EBI-2212028
SYCE1Q8N0S23EBI-748391,EBI-6872807
TRAF1Q130773EBI-748391,EBI-359224
TRIM27P143733EBI-748391,EBI-719493
TRIM37O949723EBI-748391,EBI-741602
TRIM42A1L4B63EBI-748391,EBI-10172216
TRIM54Q9BYV23EBI-748391,EBI-2130429
UBXN11Q5T1243EBI-748391,EBI-746004
ZBTB14O438293EBI-748391,EBI-10176632

GO - Molecular functioni

  • enzyme binding Source: UniProtKB

Protein-protein interaction databases

BioGridi122476. 55 interactions.
IntActiQ9BWG6. 43 interactions.
MINTiMINT-1460700.
STRINGi9606.ENSP00000357901.

Structurei

3D structure databases

ProteinModelPortaliQ9BWG6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni188 – 23043Required for interaction with LUC7L2By similarityAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi4 – 2017Bipartite nuclear localization signalSequence analysisAdd
BLAST

Sequence similaritiesi

Contains 1 matrin-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri42 – 7433Matrin-typeAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiENOG410IW6J. Eukaryota.
ENOG4112DAT. LUCA.
GeneTreeiENSGT00390000010811.
HOGENOMiHOG000033694.
HOVERGENiHBG093936.
InParanoidiQ9BWG6.
OMAiGWIPDGQ.
OrthoDBiEOG7W6WNB.
PhylomeDBiQ9BWG6.
TreeFamiTF332168.

Family and domain databases

InterProiIPR031625. SCNM1_acidic.
IPR031622. Znf-SCNM1.
[Graphical view]
PfamiPF15805. SCNM1_acidic. 1 hit.
PF15803. zf-SCNM1. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9BWG6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSFKREGDDW SQLNVLKKRR VGDLLASYIP EDEALMLRDG RFACAICPHR
60 70 80 90 100
PVLDTLAMLT AHRAGKKHLS SLQLFYGKKQ PGKERKQNPK HQNELRREET
110 120 130 140 150
KAEAPLLTQT RLITQSALHR APHYNSCCRR KYRPEAPGPS VSLSPMPPSE
160 170 180 190 200
VKLQSGKISR EPEPAAGPQA EESATVSAPA PMSPTRRRAL DHYLTLRSSG
210 220 230
WIPDGRGRWV KDENVEFDSD EEEPPDLPLD
Length:230
Mass (Da):25,949
Last modified:June 1, 2001 - v1
Checksum:i001576EA78C61C85
GO
Isoform 2 (identifier: Q9BWG6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     2-36: Missing.

Show »
Length:195
Mass (Da):21,887
Checksum:i010E51E98394DA83
GO
Isoform 3 (identifier: Q9BWG6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     134-162: PEAPGPSVSLSPMPPSEVKLQSGKISREP → YGTGKPEVGRLRRRQMALKEFSSVYSEEY
     163-230: Missing.

Note: No experimental confirmation available.
Show »
Length:162
Mass (Da):18,886
Checksum:i93C4D90FF7F664D6
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei2 – 3635Missing in isoform 2. CuratedVSP_021489Add
BLAST
Alternative sequencei134 – 16229PEAPG…ISREP → YGTGKPEVGRLRRRQMALKE FSSVYSEEY in isoform 3. 1 PublicationVSP_053982Add
BLAST
Alternative sequencei163 – 23068Missing in isoform 3. 1 PublicationVSP_053983Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK056322 mRNA. Translation: BAB71149.1.
AK301644 mRNA. Translation: BAG63123.1.
AL592424 Genomic DNA. Translation: CAI16381.1.
AL592424 Genomic DNA. Translation: CAI16382.1.
BC000264 mRNA. Translation: AAH00264.1.
CCDSiCCDS55636.1. [Q9BWG6-2]
CCDS987.1. [Q9BWG6-1]
RefSeqiNP_001191777.1. NM_001204848.1. [Q9BWG6-2]
NP_001191785.1. NM_001204856.1. [Q9BWG6-2]
NP_076946.1. NM_024041.3. [Q9BWG6-1]
UniGeneiHs.732060.

Genome annotation databases

EnsembliENST00000368902; ENSP00000357898; ENSG00000163156. [Q9BWG6-2]
ENST00000368905; ENSP00000357901; ENSG00000163156. [Q9BWG6-1]
ENST00000602841; ENSP00000473282; ENSG00000163156. [Q9BWG6-2]
GeneIDi100534012.
79005.
KEGGihsa:100534012.
hsa:79005.
UCSCiuc001ewz.4. human. [Q9BWG6-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK056322 mRNA. Translation: BAB71149.1.
AK301644 mRNA. Translation: BAG63123.1.
AL592424 Genomic DNA. Translation: CAI16381.1.
AL592424 Genomic DNA. Translation: CAI16382.1.
BC000264 mRNA. Translation: AAH00264.1.
CCDSiCCDS55636.1. [Q9BWG6-2]
CCDS987.1. [Q9BWG6-1]
RefSeqiNP_001191777.1. NM_001204848.1. [Q9BWG6-2]
NP_001191785.1. NM_001204856.1. [Q9BWG6-2]
NP_076946.1. NM_024041.3. [Q9BWG6-1]
UniGeneiHs.732060.

3D structure databases

ProteinModelPortaliQ9BWG6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122476. 55 interactions.
IntActiQ9BWG6. 43 interactions.
MINTiMINT-1460700.
STRINGi9606.ENSP00000357901.

PTM databases

iPTMnetiQ9BWG6.
PhosphoSiteiQ9BWG6.

Polymorphism and mutation databases

BioMutaiSCNM1.
DMDMi74752399.

Proteomic databases

EPDiQ9BWG6.
MaxQBiQ9BWG6.
PaxDbiQ9BWG6.
PRIDEiQ9BWG6.

Protocols and materials databases

DNASUi79005.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000368902; ENSP00000357898; ENSG00000163156. [Q9BWG6-2]
ENST00000368905; ENSP00000357901; ENSG00000163156. [Q9BWG6-1]
ENST00000602841; ENSP00000473282; ENSG00000163156. [Q9BWG6-2]
GeneIDi100534012.
79005.
KEGGihsa:100534012.
hsa:79005.
UCSCiuc001ewz.4. human. [Q9BWG6-1]

Organism-specific databases

CTDi100534012.
79005.
GeneCardsiSCNM1.
HGNCiHGNC:23136. SCNM1.
HPAiHPA052439.
HPA054324.
MIMi608095. gene.
neXtProtiNX_Q9BWG6.
PharmGKBiPA134958437.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IW6J. Eukaryota.
ENOG4112DAT. LUCA.
GeneTreeiENSGT00390000010811.
HOGENOMiHOG000033694.
HOVERGENiHBG093936.
InParanoidiQ9BWG6.
OMAiGWIPDGQ.
OrthoDBiEOG7W6WNB.
PhylomeDBiQ9BWG6.
TreeFamiTF332168.

Miscellaneous databases

NextBioi35475791.
PROiQ9BWG6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BWG6.
CleanExiHS_SCNM1.
GenevisibleiQ9BWG6. HS.

Family and domain databases

InterProiIPR031625. SCNM1_acidic.
IPR031622. Znf-SCNM1.
[Graphical view]
PfamiPF15805. SCNM1_acidic. 1 hit.
PF15803. zf-SCNM1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3).
    Tissue: Esophagus.
  2. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Eye.
  4. "Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis."
    Cantin G.T., Yi W., Lu B., Park S.K., Xu T., Lee J.-D., Yates J.R. III
    J. Proteome Res. 7:1346-1351(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  5. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-144, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  6. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-219, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  7. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiSCNM1_HUMAN
AccessioniPrimary (citable) accession number: Q9BWG6
Secondary accession number(s): B4DWR1, Q5JR74
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 31, 2006
Last sequence update: June 1, 2001
Last modified: April 13, 2016
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.