O15041 (SEM3E_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Semaphorin-3E

Gene names

Name:	SEMA3E
Synonyms:	KIAA0331, SEMAH

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	775 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Plays an important role in signaling via the cell surface receptor PLXND1. Mediates reorganization of the actin cytoskeleton, leading to the retraction of cell projections. Promotes focal adhesion disassembly and inhibits adhesion of endothelial cells to the extracellular matrix. Regulates angiogenesis, both during embryogenesis and after birth. Can down-regulate sprouting angiogenesis. Required for normal vascular patterning during embryogenesis. Plays an important role in ensuring the specificity of synapse formation By similarity.
Subunit structure	Interacts with PLXND1 By similarity.
Subcellular location	Secreted By similarity.
Sequence similarities	Belongs to the semaphorin family. Contains 1 Ig-like C2-type (immunoglobulin-like) domain. Contains 1 Sema domain.
Sequence caution	The sequence BAA20789.2 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Angiogenesis Differentiation Neurogenesis
Cellular component	Secreted
Coding sequence diversity	Alternative splicing
Domain	Immunoglobulin domain Signal
Molecular function	Developmental protein
PTM	Disulfide bond Glycoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	axon guidance Traceable author statement. Source: Reactome negative regulation of angiogenesis Inferred from sequence or structural similarity. Source: UniProtKB negative regulation of cell-matrix adhesion Inferred from sequence or structural similarity. Source: UniProtKB patterning of blood vessels Inferred from sequence or structural similarity. Source: UniProtKB regulation of actin cytoskeleton reorganization Inferred from sequence or structural similarity. Source: UniProtKB regulation of cell shape Inferred from sequence or structural similarity. Source: UniProtKB semaphorin-plexin signaling pathway Inferred from sequence or structural similarity. Source: UniProtKB sprouting angiogenesis Inferred from sequence or structural similarity. Source: UniProtKB synapse organization Inferred from sequence or structural similarity. Source: UniProtKB
Cellular_component	extracellular space Traceable author statement PubMed 9515811. Source: ProtInc membrane Inferred from electronic annotation. Source: InterPro
Molecular_function	receptor activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: O15041-1)

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: O15041-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-60: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 25	25	Potential
	Chain	26 – 775	750	Semaphorin-3E		PRO_0000032317
Regions
	Domain	32 – 516	485	Sema
	Domain	581 – 669	89	Ig-like C2-type
	Compositional bias	737 – 770	34	Arg/Lys-rich (basic)
Amino acid modifications
	Glycosylation	44	1	N-linked (GlcNAc...) Potential
	Glycosylation	126	1	N-linked (GlcNAc...) Potential
	Glycosylation	330	1	N-linked (GlcNAc...) Potential
	Glycosylation	595	1	N-linked (GlcNAc...) Potential
	Glycosylation	596	1	N-linked (GlcNAc...) Potential
	Disulfide bond	105 ↔ 115		By similarity
	Disulfide bond	133 ↔ 142		By similarity
	Disulfide bond	270 ↔ 382		By similarity
	Disulfide bond	294 ↔ 342		By similarity
	Disulfide bond	519 ↔ 537		By similarity
	Disulfide bond	654 ↔ 729		By similarity
Natural variations
	Alternative sequence	1 – 60	60	Missing in isoform 2.		VSP_046237

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: CD6079C1AE48F779	FASTA	775	89,228
	10 20 30 40 50 60 MASAGHIITL LLWGYLLELW TGGHTADTTH PRLRLSHKEL LNLNRTSIFH SPFGFLDLHT 70 80 90 100 110 120 MLLDEYQERL FVGGRDLVYS LSLERISDGY KEIHWPSTAL KMEECIMKGK DAGECANYVR 130 140 150 160 170 180 VLHHYNRTHL LTCGTGAFDP VCAFIRVGYH LEDPLFHLES PRSERGRGRC PFDPSSSFIS 190 200 210 220 230 240 TLIGSELFAG LYSDYWSRDA AIFRSMGRLA HIRTEHDDER LLKEPKFVGS YMIPDNEDRD 250 260 270 280 290 300 DNKVYFFFTE KALEAENNAH AIYTRVGRLC VNDVGGQRIL VNKWSTFLKA RLVCSVPGMN 310 320 330 340 350 360 GIDTYFDELE DVFLLPTRDH KNPVIFGLFN TTSNIFRGHA ICVYHMSSIR AAFNGPYAHK 370 380 390 400 410 420 EGPEYHWSVY EGKVPYPRPG SCASKVNGGR YGTTKDYPDD AIRFARSHPL MYQAIKPAHK 430 440 450 460 470 480 KPILVKTDGK YNLKQIAVDR VEAEDGQYDV LFIGTDNGIV LKVITIYNQE MESMEEVILE 490 500 510 520 530 540 ELQIFKDPVP IISMEISSKR QQLYIGSASA VAQVRFHHCD MYGSACADCC LARDPYCAWD 550 560 570 580 590 600 GISCSRYYPT GTHAKRRFRR QDVRHGNAAQ QCFGQQFVGD ALDKTEEHLA YGIENNSTLL 610 620 630 640 650 660 ECTPRSLQAK VIWFVQKGRE TRKEEVKTDD RVVKMDLGLL FLRLHKSDAG TYFCQTVEHS 670 680 690 700 710 720 FVHTVRKITL EVVEEEKVED MFNKDDEEDR HHRMPCPAQS SISQGAKPWY KEFLQLIGYS 730 740 750 760 770 NFQRVEEYCE KVWCTDRKRK KLKMSPSKWK YANPQEKKLR SKPEHYRLPR HTLDS
	Isoform 2 [UniParc]. Checksum: F50FFAD229C17EAA	FASTA	715	82,424
	10 20 30 40 50 60 MLLDEYQERL FVGGRDLVYS LSLERISDGY KEIHWPSTAL KMEECIMKGK DAGECANYVR 70 80 90 100 110 120 VLHHYNRTHL LTCGTGAFDP VCAFIRVGYH LEDPLFHLES PRSERGRGRC PFDPSSSFIS 130 140 150 160 170 180 TLIGSELFAG LYSDYWSRDA AIFRSMGRLA HIRTEHDDER LLKEPKFVGS YMIPDNEDRD 190 200 210 220 230 240 DNKVYFFFTE KALEAENNAH AIYTRVGRLC VNDVGGQRIL VNKWSTFLKA RLVCSVPGMN 250 260 270 280 290 300 GIDTYFDELE DVFLLPTRDH KNPVIFGLFN TTSNIFRGHA ICVYHMSSIR AAFNGPYAHK 310 320 330 340 350 360 EGPEYHWSVY EGKVPYPRPG SCASKVNGGR YGTTKDYPDD AIRFARSHPL MYQAIKPAHK 370 380 390 400 410 420 KPILVKTDGK YNLKQIAVDR VEAEDGQYDV LFIGTDNGIV LKVITIYNQE MESMEEVILE 430 440 450 460 470 480 ELQIFKDPVP IISMEISSKR QQLYIGSASA VAQVRFHHCD MYGSACADCC LARDPYCAWD 490 500 510 520 530 540 GISCSRYYPT GTHAKRRFRR QDVRHGNAAQ QCFGQQFVGD ALDKTEEHLA YGIENNSTLL 550 560 570 580 590 600 ECTPRSLQAK VIWFVQKGRE TRKEEVKTDD RVVKMDLGLL FLRLHKSDAG TYFCQTVEHS 610 620 630 640 650 660 FVHTVRKITL EVVEEEKVED MFNKDDEEDR HHRMPCPAQS SISQGAKPWY KEFLQLIGYS 670 680 690 700 710 NFQRVEEYCE KVWCTDRKRK KLKMSPSKWK YANPQEKKLR SKPEHYRLPR HTLDS

References

[1]	"Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro." Nagase T., Ishikawa K., Nakajima D., Ohira M., Seki N., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O. DNA Res. 4:141-150(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Brain.
[2]	"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 2). Tissue: Trachea.
[3]	"The DNA sequence of human chromosome 7." Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L. , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K. Nature 424:157-164(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AB002329 mRNA. Translation: BAA20789.2. Different initiation. AK303925 mRNA. Translation: BAG64853.1. AC004954 Genomic DNA. Translation: AAC69513.1. AC006204 Genomic DNA. No translation available. AC079799 Genomic DNA. Translation: AAS07488.1. AC079987 Genomic DNA. Translation: AAS07487.1.
IPI	IPI00004494. IPI00926617.
RefSeq	NP_001171600.1. NM_001178129.1. NP_036563.1. NM_012431.2.
UniGene	Hs.528721.
3D structure databases
ProteinModelPortal	O15041.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-4507944.
STRING	9606.ENSP00000303212.
PTM databases
PhosphoSite	O15041.
Proteomic databases
PaxDb	O15041.
PRIDE	O15041.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000307792; ENSP00000303212; ENSG00000170381. ENST00000427262; ENSP00000405052; ENSG00000170381.
GeneID	9723.
KEGG	hsa:9723.
UCSC	uc003uhy.2. human.
Organism-specific databases
CTD	9723.
GeneCards	GC07M082993.
HGNC	HGNC:10727. SEMA3E.
HPA	HPA029419.
MIM	608166. gene.
neXtProt	NX_O15041.
Orphanet	138. CHARGE syndrome.
PharmGKB	PA35649.
HUGE	Search...
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG324739.
HOGENOM	HOG000039964.
HOVERGEN	HBG055071.
InParanoid	O15041.
KO	K06840.
OMA	MIPDNED.
OrthoDB	EOG4THVSM.
PhylomeDB	O15041.
Enzyme and pathway databases
Reactome	REACT_111045. Developmental Biology.
Gene expression databases
ArrayExpress	O15041.
Bgee	O15041.
CleanEx	HS_SEMA3E.
Genevestigator	O15041.
GermOnline	ENSG00000170381. Homo sapiens.
Family and domain databases
Gene3D	2.130.10.10. 1 hit.
InterPro	IPR007110. Ig-like_dom. IPR003599. Ig_sub. IPR013151. Immunoglobulin. IPR003659. Plexin-like. IPR016201. Plexin-like_fold. IPR027231. Semaphorin. IPR001627. Semaphorin/CD100_Ag. IPR015513. Semaphorin_3E. IPR015943. WD40/YVTN_repeat-like_dom. [Graphical view]
PANTHER	PTHR11036. PTHR11036. 1 hit. PTHR11036:SF22. PTHR11036:SF22. 1 hit.
Pfam	PF00047. ig. 1 hit. PF01403. Sema. 1 hit. [Graphical view]
SMART	SM00409. IG. 1 hit. SM00423. PSI. 1 hit. SM00630. Sema. 1 hit. [Graphical view]
SUPFAM	SSF103575. Plexin-like_fold. 1 hit. SSF101912. Sema. 1 hit.
PROSITE	PS50835. IG_LIKE. 1 hit. PS51004. SEMA. 1 hit. [Graphical view]
ProtoNet	Search...
Other
GenomeRNAi	9723.
NextBio	36577.
SOURCE	Search...

Entry information

Entry name

SEM3E_HUMAN

Accession

Primary (citable) accession number: O15041
Secondary accession number(s): B4E1P1, Q75M94, Q75M97

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	January 1, 1998
Last modified:	May 1, 2013
This is version 118 of the entry and version 1 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.