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Protein

Semaphorin-3E

Gene

SEMA3E

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

Functioni

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).By similarity

GO - Molecular functioni

  1. receptor activity Source: InterPro

GO - Biological processi

  1. axon guidance Source: Reactome
  2. negative regulation of angiogenesis Source: UniProtKB
  3. negative regulation of cell-matrix adhesion Source: UniProtKB
  4. patterning of blood vessels Source: UniProtKB
  5. regulation of actin cytoskeleton reorganization Source: UniProtKB
  6. regulation of cell shape Source: UniProtKB
  7. semaphorin-plexin signaling pathway Source: UniProtKB
  8. sprouting angiogenesis Source: UniProtKB
  9. synapse organization Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Angiogenesis, Differentiation, Neurogenesis

Enzyme and pathway databases

ReactomeiREACT_19200. Other semaphorin interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3E
Gene namesi
Name:SEMA3E
Synonyms:KIAA0331, SEMAH
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 7

Organism-specific databases

HGNCiHGNC:10727. SEMA3E.

Subcellular locationi

  1. Secreted By similarity

GO - Cellular componenti

  1. extracellular region Source: Reactome
  2. extracellular space Source: ProtInc
  3. membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

Orphaneti138. CHARGE syndrome.
PharmGKBiPA35649.

Polymorphism and mutation databases

BioMutaiSEMA3E.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2525Sequence AnalysisAdd
BLAST
Chaini26 – 775750Semaphorin-3EPRO_0000032317Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi44 – 441N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi105 ↔ 115By similarity
Glycosylationi126 – 1261N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi133 ↔ 142By similarity
Disulfide bondi270 ↔ 382By similarity
Disulfide bondi294 ↔ 342By similarity
Glycosylationi330 – 3301N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi519 ↔ 537By similarity
Glycosylationi595 – 5951N-linked (GlcNAc...)Sequence Analysis
Glycosylationi596 – 5961N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi654 ↔ 729By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO15041.
PRIDEiO15041.

PTM databases

PhosphoSiteiO15041.

Expressioni

Gene expression databases

BgeeiO15041.
CleanExiHS_SEMA3E.
ExpressionAtlasiO15041. baseline and differential.
GenevestigatoriO15041.

Organism-specific databases

HPAiHPA029419.

Interactioni

Subunit structurei

Interacts with PLXND1.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
PLXND1Q9Y4D72EBI-7283693,EBI-310731

Protein-protein interaction databases

IntActiO15041. 1 interaction.
MINTiMINT-4507944.
STRINGi9606.ENSP00000303212.

Structurei

3D structure databases

ProteinModelPortaliO15041.
SMRiO15041. Positions 31-567.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini32 – 516485SemaPROSITE-ProRule annotationAdd
BLAST
Domaini581 – 66989Ig-like C2-typeAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi737 – 77034Arg/Lys-rich (basic)Add
BLAST

Sequence similaritiesi

Belongs to the semaphorin family.Curated
Contains 1 Sema domain.PROSITE-ProRule annotation

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG324739.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO15041.
KOiK06840.
OMAiEIHWPST.
OrthoDBiEOG7M0NQV.
PhylomeDBiO15041.
TreeFamiTF352628.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR003599. Ig_sub.
IPR013151. Immunoglobulin.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015513. Semaphorin_3E.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PTHR11036:SF22. PTHR11036:SF22. 1 hit.
PfamiPF00047. ig. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: O15041-1) [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
MASAGHIITL LLWGYLLELW TGGHTADTTH PRLRLSHKEL LNLNRTSIFH
60 70 80 90 100
SPFGFLDLHT MLLDEYQERL FVGGRDLVYS LSLERISDGY KEIHWPSTAL
110 120 130 140 150
KMEECIMKGK DAGECANYVR VLHHYNRTHL LTCGTGAFDP VCAFIRVGYH
160 170 180 190 200
LEDPLFHLES PRSERGRGRC PFDPSSSFIS TLIGSELFAG LYSDYWSRDA
210 220 230 240 250
AIFRSMGRLA HIRTEHDDER LLKEPKFVGS YMIPDNEDRD DNKVYFFFTE
260 270 280 290 300
KALEAENNAH AIYTRVGRLC VNDVGGQRIL VNKWSTFLKA RLVCSVPGMN
310 320 330 340 350
GIDTYFDELE DVFLLPTRDH KNPVIFGLFN TTSNIFRGHA ICVYHMSSIR
360 370 380 390 400
AAFNGPYAHK EGPEYHWSVY EGKVPYPRPG SCASKVNGGR YGTTKDYPDD
410 420 430 440 450
AIRFARSHPL MYQAIKPAHK KPILVKTDGK YNLKQIAVDR VEAEDGQYDV
460 470 480 490 500
LFIGTDNGIV LKVITIYNQE MESMEEVILE ELQIFKDPVP IISMEISSKR
510 520 530 540 550
QQLYIGSASA VAQVRFHHCD MYGSACADCC LARDPYCAWD GISCSRYYPT
560 570 580 590 600
GTHAKRRFRR QDVRHGNAAQ QCFGQQFVGD ALDKTEEHLA YGIENNSTLL
610 620 630 640 650
ECTPRSLQAK VIWFVQKGRE TRKEEVKTDD RVVKMDLGLL FLRLHKSDAG
660 670 680 690 700
TYFCQTVEHS FVHTVRKITL EVVEEEKVED MFNKDDEEDR HHRMPCPAQS
710 720 730 740 750
SISQGAKPWY KEFLQLIGYS NFQRVEEYCE KVWCTDRKRK KLKMSPSKWK
760 770
YANPQEKKLR SKPEHYRLPR HTLDS
Length:775
Mass (Da):89,228
Last modified:January 1, 1998 - v1
Checksum:iCD6079C1AE48F779
GO
Isoform 2 (identifier: O15041-2) [UniParc]FASTAAdd to basket

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

Note: No experimental confirmation available.

Show »
Length:715
Mass (Da):82,424
Checksum:iF50FFAD229C17EAA
GO

Sequence cautioni

The sequence BAA20789.2 differs from that shown. Reason: Erroneous initiation. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 6060Missing in isoform 2. 1 PublicationVSP_046237Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS34674.1. [O15041-1]
CCDS55121.1. [O15041-2]
RefSeqiNP_001171600.1. NM_001178129.1. [O15041-2]
NP_036563.1. NM_012431.2. [O15041-1]
UniGeneiHs.528721.

Genome annotation databases

EnsembliENST00000307792; ENSP00000303212; ENSG00000170381. [O15041-1]
ENST00000427262; ENSP00000405052; ENSG00000170381. [O15041-2]
GeneIDi9723.
KEGGihsa:9723.
UCSCiuc003uhy.2. human. [O15041-1]

Polymorphism and mutation databases

BioMutaiSEMA3E.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS34674.1. [O15041-1]
CCDS55121.1. [O15041-2]
RefSeqiNP_001171600.1. NM_001178129.1. [O15041-2]
NP_036563.1. NM_012431.2. [O15041-1]
UniGeneiHs.528721.

3D structure databases

ProteinModelPortaliO15041.
SMRiO15041. Positions 31-567.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiO15041. 1 interaction.
MINTiMINT-4507944.
STRINGi9606.ENSP00000303212.

PTM databases

PhosphoSiteiO15041.

Polymorphism and mutation databases

BioMutaiSEMA3E.

Proteomic databases

PaxDbiO15041.
PRIDEiO15041.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000307792; ENSP00000303212; ENSG00000170381. [O15041-1]
ENST00000427262; ENSP00000405052; ENSG00000170381. [O15041-2]
GeneIDi9723.
KEGGihsa:9723.
UCSCiuc003uhy.2. human. [O15041-1]

Organism-specific databases

CTDi9723.
GeneCardsiGC07M082993.
HGNCiHGNC:10727. SEMA3E.
HPAiHPA029419.
MIMi608166. gene.
neXtProtiNX_O15041.
Orphaneti138. CHARGE syndrome.
PharmGKBiPA35649.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG324739.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO15041.
KOiK06840.
OMAiEIHWPST.
OrthoDBiEOG7M0NQV.
PhylomeDBiO15041.
TreeFamiTF352628.

Enzyme and pathway databases

ReactomeiREACT_19200. Other semaphorin interactions.

Miscellaneous databases

ChiTaRSiSEMA3E. human.
GenomeRNAii9723.
NextBioi36577.
PROiO15041.
SOURCEiSearch...

Gene expression databases

BgeeiO15041.
CleanExiHS_SEMA3E.
ExpressionAtlasiO15041. baseline and differential.
GenevestigatoriO15041.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR003599. Ig_sub.
IPR013151. Immunoglobulin.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015513. Semaphorin_3E.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PTHR11036:SF22. PTHR11036:SF22. 1 hit.
PfamiPF00047. ig. 1 hit.
PF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  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].

Entry informationi

Entry nameiSEM3E_HUMAN
AccessioniPrimary (citable) accession number: O15041
Secondary accession number(s): B4E1P1, Q75M94, Q75M97
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: January 1, 1998
Last modified: April 29, 2015
This is version 136 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 7
    Human chromosome 7: 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

External Data

Dasty 3

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 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.