Q96NL6 (SCLT1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Sodium channel and clathrin linker 1

Alternative name(s):
Sodium channel-associated protein 1

Gene names

Name:	SCLT1
Synonyms:	SAP1

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	688 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Adapter protein that links SCN10A to clathrin. Regulates SCN10A channel activity, possibly by promoting channel internalization By similarity.
Subunit structure	Interacts with SCN10A and clathrin. Identified in a complex containing SCN10A, clathrin and SCLT1 By similarity.
Subcellular location	Cytoplasm. Note: Cell periphery By similarity.

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Coiled coil
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	clustering of voltage-gated sodium channels Inferred from electronic annotation. Source: Compara
Cellular_component	centrosome Inferred from direct assay PubMed 21399614. Source: UniProtKB clathrin complex Inferred from electronic annotation. Source: Compara cytoplasm Inferred from direct assay. Source: HPA intermediate filament cytoskeleton Inferred from direct assay. Source: HPA
Molecular_function	sodium channel regulator activity Inferred from electronic annotation. Source: Compara
Complete GO annotation...

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q96NL6-1)

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.

Isoform 2 (identifier: Q96NL6-2)

The sequence of this isoform differs from the canonical sequence as follows:
     230-610: Missing.

Note: No experimental confirmation available.

Isoform 3 (identifier: Q96NL6-3)

The sequence of this isoform differs from the canonical sequence as follows:
     98-610: Missing.

Note: No experimental confirmation available.

Isoform 4 (identifier: Q96NL6-4)

The sequence of this isoform differs from the canonical sequence as follows:
     79-79: K → A
     80-688: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 688	688	Sodium channel and clathrin linker 1		PRO_0000317127
Regions
	Coiled coil	69 – 673	605	Potential
Natural variations
	Alternative sequence	79	1	K → A in isoform 4.		VSP_030904
	Alternative sequence	80 – 688	609	Missing in isoform 4.		VSP_030905
	Alternative sequence	98 – 610	513	Missing in isoform 3.		VSP_030906
	Alternative sequence	230 – 610	381	Missing in isoform 2.		VSP_030907
	Natural variant	441	1	S → C. Ref.1 Ref.3 Corresponds to variant rs10028124 [ dbSNP | Ensembl ].		VAR_038481

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified July 13, 2010. Version 2. Checksum: 9432F258529C47D3	FASTA	688	80,910
	10 20 30 40 50 60 MAAEIDFLRE QNRRLNEDFR RYQMESFSKY SSVQKAVCQG EGDDTFENLV FDQSFLAPLV 70 80 90 100 110 120 TEYDKHLGEL NGQLKYYQKQ VGEMKLQLEN VIKENERLHS ELKDAVEKKL EAFPLGTEVG 130 140 150 160 170 180 TDIYADDETV RNLQEQLQLA NQEKTQAVEL WQTVSQELDR LHKLYQEHMT EAQIHVFESQ 190 200 210 220 230 240 KQKDQLFDFQ QLTKQLHVTN ENMEVTNQQF LKTVTEQSVI IEQLRKKLRQ AKLELRVAVA 250 260 270 280 290 300 KVEELTNVTE DLQGQMKKKE KDVVSAHGRE EASDRRLQQL QSSIKQLEIR LCVTIQEANQ 310 320 330 340 350 360 LRTENTHLEK QTRELQAKCN ELENERYEAI VRARNSMQLL EEANLQKSQA LLEEKQKEED 370 380 390 400 410 420 IEKMKETVSR FVQDATIRTK KEVANTKKQC NIQISRLTEE LSALQMECAE KQGQIERVIK 430 440 450 460 470 480 EKKAVEEELE KIYREGRGNE SDYRKLEEMH QRFLVSERSK DDLQLRLTRA ENRIKQLETD 490 500 510 520 530 540 SSEEISRYQE MIQKLQNVLE SERENCGLVS EQRLKLQQEN KQLRKETESL RKIALEAQKK 550 560 570 580 590 600 AKVKISTMEH EFSIKERGFE VQLREMEDSN RNSIVELRHL LATQQKAANR WKEETKKLTE 610 620 630 640 650 660 SAEIRINNLK SELSRQKLHT QELLSQLEMA NEKVAENEKL ILEHQEKANR LQRRLSQAEE 670 680 RAASASQQLS VITVQRRKAA SLMNLENI
	Isoform 2 [UniParc]. Checksum: 4587B760E26E200D	FASTA	307	36,042
	10 20 30 40 50 60 MAAEIDFLRE QNRRLNEDFR RYQMESFSKY SSVQKAVCQG EGDDTFENLV FDQSFLAPLV 70 80 90 100 110 120 TEYDKHLGEL NGQLKYYQKQ VGEMKLQLEN VIKENERLHS ELKDAVEKKL EAFPLGTEVG 130 140 150 160 170 180 TDIYADDETV RNLQEQLQLA NQEKTQAVEL WQTVSQELDR LHKLYQEHMT EAQIHVFESQ 190 200 210 220 230 240 KQKDQLFDFQ QLTKQLHVTN ENMEVTNQQF LKTVTEQSVI IEQLRKKLRS ELSRQKLHTQ 250 260 270 280 290 300 ELLSQLEMAN EKVAENEKLI LEHQEKANRL QRRLSQAEER AASASQQLSV ITVQRRKAAS LMNLENI
	Isoform 3 [UniParc]. Checksum: 282CB741C90CFC0A	FASTA	175	20,468
	10 20 30 40 50 60 MAAEIDFLRE QNRRLNEDFR RYQMESFSKY SSVQKAVCQG EGDDTFENLV FDQSFLAPLV 70 80 90 100 110 120 TEYDKHLGEL NGQLKYYQKQ VGEMKLQLEN VIKENERSEL SRQKLHTQEL LSQLEMANEK 130 140 150 160 170 VAENEKLILE HQEKANRLQR RLSQAEERAA SASQQLSVIT VQRRKAASLM NLENI
	Isoform 4 [UniParc]. Checksum: ED2C20AEE54627E8	FASTA	79	9,323
	10 20 30 40 50 60 MAAEIDFLRE QNRRLNEDFR RYQMESFSKY SSVQKAVCQG EGDDTFENLV FDQSFLAPLV 70 TEYDKHLGEL NGQLKYYQA

References

[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] (ISOFORM 1), VARIANT CYS-441.
[2]	"Generation and annotation of the DNA sequences of human chromosomes 2 and 4." Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H. , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K. Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[3]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT CYS-441.
[4]	"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] (ISOFORMS 2; 3 AND 4). Tissue: Lung.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AK055217 mRNA. Translation: BAB70876.1. AC093783 Genomic DNA. No translation available. AC093826 Genomic DNA. No translation available. CH471056 Genomic DNA. Translation: EAX05167.1. BC064428 mRNA. Translation: AAH64428.1. BC121057 mRNA. Translation: AAI21058.1. BC121058 mRNA. Translation: AAI21059.1. BC128051 mRNA. Translation: AAI28052.1.
IPI	IPI00043740. IPI00884940. IPI00885137. IPI00885162.
RefSeq	NP_653244.2. NM_144643.2.
UniGene	Hs.654690.
3D structure databases
HSSP	HSSP built from PDB template 1X79 based on UniProtKB Q15276.
ProteinModelPortal	Q96NL6.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q96NL6. 5 interactions.
STRING	9606.ENSP00000281142.
PTM databases
PhosphoSite	Q96NL6.
Polymorphism databases
DMDM	300669665.
Proteomic databases
PaxDb	Q96NL6.
PRIDE	Q96NL6.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000281142; ENSP00000281142; ENSG00000151466. ENST00000434680; ENSP00000401539; ENSG00000151466. ENST00000439369; ENSP00000395292; ENSG00000151466. ENST00000511426; ENSP00000420861; ENSG00000151466.
GeneID	132320.
KEGG	hsa:132320.
UCSC	uc003ign.2. human. uc003igq.2. human. uc003igt.4. human. uc010iob.1. human.
Organism-specific databases
CTD	132320.
GeneCards	GC04M129805.
H-InvDB	HIX0004499.
HGNC	HGNC:26406. SCLT1.
HPA	HPA036561.
MIM	611399. gene.
neXtProt	NX_Q96NL6.
PharmGKB	PA147357369.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG121178.
HOGENOM	HOG000154268.
HOVERGEN	HBG098335.
InParanoid	Q96NL6.
OMA	RRYQMEN.
OrthoDB	EOG44QT17.
PhylomeDB	Q96NL6.
Gene expression databases
ArrayExpress	Q96NL6.
Bgee	Q96NL6.
CleanEx	HS_SCLT1.
Genevestigator	Q96NL6.
Family and domain databases
ProtoNet	Search...
Other
ChiTaRS	SCLT1. human.
GenomeRNAi	132320.
NextBio	83079.
SOURCE	Search...

Entry information

Entry name

SCLT1_HUMAN

Accession

Primary (citable) accession number: Q96NL6
Secondary accession number(s): A4QN04, Q0VAH2, Q6P2M4

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 5, 2008
Last sequence update:	July 13, 2010
Last modified:	April 3, 2013
This is version 73 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.