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Q8BH34

- SEM3D_MOUSE

UniProt

Q8BH34 - SEM3D_MOUSE

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Protein

Semaphorin-3D

Gene

Sema3d

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

Induces the collapse and paralysis of neuronal growth cones. Could potentially act as repulsive cues toward specific neuronal populations. Binds to neuropilin (By similarity).By similarity

GO - Molecular functioni

  1. receptor activity Source: InterPro

GO - Biological processi

  1. cell differentiation Source: UniProtKB-KW
  2. nervous system development Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Differentiation, Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3D
Gene namesi
Name:Sema3d
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 5

Organism-specific databases

MGIiMGI:1860118. Sema3d.

Subcellular locationi

Secreted By similarity

GO - Cellular componenti

  1. extracellular region Source: UniProtKB-KW
  2. membrane Source: InterPro
Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3737Sequence AnalysisAdd
BLAST
Chaini38 – 777740Semaphorin-3DPRO_0000042161Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi117 ↔ 128By similarity
Glycosylationi139 – 1391N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi146 ↔ 155By similarity
Disulfide bondi286 ↔ 398By similarity
Disulfide bondi310 ↔ 358By similarity
Disulfide bondi534 ↔ 552By similarity
Glycosylationi607 – 6071N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi665 ↔ 731By similarity
Glycosylationi724 – 7241N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PRIDEiQ8BH34.

PTM databases

PhosphoSiteiQ8BH34.

Expressioni

Gene expression databases

BgeeiQ8BH34.
ExpressionAtlasiQ8BH34. baseline and differential.
GenevestigatoriQ8BH34.

Structurei

3D structure databases

ProteinModelPortaliQ8BH34.
SMRiQ8BH34. Positions 39-683.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini44 – 531488SemaPROSITE-ProRule annotationAdd
BLAST
Domaini533 – 58553PSIAdd
BLAST
Domaini592 – 68089Ig-like C2-typeAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi739 – 77335Arg/Lys-rich (basic)Add
BLAST

Domaini

Strong binding to neuropilin is mediated by the carboxy third of the protein.

Sequence similaritiesi

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

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG247995.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiQ8BH34.
KOiK06840.
OMAiKACADCC.
OrthoDBiEOG76QFGN.
PhylomeDBiQ8BH34.
TreeFamiTF316102.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01403. Sema. 1 hit.
PF07686. V-set. 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]

Sequencei

Sequence statusi: Complete.

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

Q8BH34-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNVTKDENPR SRSQDLHLFH AWMMLIMTVL FLPVTETSKQ NIPRLKLTYK
60 70 80 90 100
DLLLSNTCIP FLGSSEGLDF QTLLLDEERG ILLLGAKDHV FLLSLVDLNK
110 120 130 140 150
NFKKIYWPAA KERVELCKLA GKDANAECAN FIRVLQPYNK THVYVCGTGA
160 170 180 190 200
FHPLCGYIDL GANKEELIFK LDTHNLESGR LKCPFDPQQP FASVMTDEHL
210 220 230 240 250
YSGTASDFLG KDTAFTRSLG LMQDHHSIRT DISEHHWLNG AKFIGTFPIP
260 270 280 290 300
DTYNPDDDKI YFFFRESSQE GSTSDRSILS RVGRVCKNDV GGQRSLINKW
310 320 330 340 350
TTFLKARLIC SIPGSDGADT HFDELQDIYL LPTRDERNPV VYGVFTTTSS
360 370 380 390 400
IFKGSAVCVY SMADIRAVFN GPYAHKESAD HRWVQYDGRI PYPRPGTCPS
410 420 430 440 450
KTYDPLIKST RDFPDDVISF IRRHPVMYKS VYPVAGAPTF KRINVDYRLT
460 470 480 490 500
QIVVDHVVAE DGQYDVMFLG TDIGTVLKVV SISKEKWNME EVVLEELQVF
510 520 530 540 550
KHPTAILNME LSLKQQQLYV GSWDGLVQLS LHRCDTYGKA CADCCLARDP
560 570 580 590 600
YCAWDGNACS RYAPTSKRRA RRQDVKYGDP ITQCWDIEDS ISHETADEKV
610 620 630 640 650
IFGIEFNSTF LECIPKSQQA SVEWYIQRSG DEHREELKPD ERIIKTDYGL
660 670 680 690 700
LIRSLQKKDS GMYYCKAQEH TFIHTIVKLT LNVIENEQME NTQRAEYQEG
710 720 730 740 750
QVKDLLAESR LRYKDYIQIL SSPNFSLDQY CEQMWYKEKR RQRNKGSPKW
760 770
KHMQEMKKKR NRRHHRDLDE LQRSVAT
Length:777
Mass (Da):89,549
Last modified:March 1, 2003 - v1
Checksum:i5450D8D45D1BDABF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK028900 mRNA. Translation: BAC26185.1.
AK052671 mRNA. Translation: BAC35092.1.
CCDSiCCDS39013.1.
RefSeqiNP_083158.3. NM_028882.4.
XP_006503588.1. XM_006503525.1.
UniGeneiMm.89313.

Genome annotation databases

EnsembliENSMUST00000030868; ENSMUSP00000030868; ENSMUSG00000040254.
GeneIDi108151.
KEGGimmu:108151.
UCSCiuc008wlx.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK028900 mRNA. Translation: BAC26185.1 .
AK052671 mRNA. Translation: BAC35092.1 .
CCDSi CCDS39013.1.
RefSeqi NP_083158.3. NM_028882.4.
XP_006503588.1. XM_006503525.1.
UniGenei Mm.89313.

3D structure databases

ProteinModelPortali Q8BH34.
SMRi Q8BH34. Positions 39-683.
ModBasei Search...
MobiDBi Search...

PTM databases

PhosphoSitei Q8BH34.

Proteomic databases

PRIDEi Q8BH34.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000030868 ; ENSMUSP00000030868 ; ENSMUSG00000040254 .
GeneIDi 108151.
KEGGi mmu:108151.
UCSCi uc008wlx.2. mouse.

Organism-specific databases

CTDi 223117.
MGIi MGI:1860118. Sema3d.

Phylogenomic databases

eggNOGi NOG247995.
GeneTreei ENSGT00760000118854.
HOGENOMi HOG000039964.
HOVERGENi HBG055071.
InParanoidi Q8BH34.
KOi K06840.
OMAi KACADCC.
OrthoDBi EOG76QFGN.
PhylomeDBi Q8BH34.
TreeFami TF316102.

Miscellaneous databases

ChiTaRSi Sema3d. mouse.
NextBioi 360170.
PROi Q8BH34.
SOURCEi Search...

Gene expression databases

Bgeei Q8BH34.
ExpressionAtlasi Q8BH34. baseline and differential.
Genevestigatori Q8BH34.

Family and domain databases

Gene3Di 2.130.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProi IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR013106. Ig_V-set.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view ]
PANTHERi PTHR11036. PTHR11036. 1 hit.
Pfami PF01403. Sema. 1 hit.
PF07686. V-set. 1 hit.
[Graphical view ]
SMARTi SM00409. IG. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view ]
SUPFAMi SSF101912. SSF101912. 1 hit.
SSF103575. SSF103575. 1 hit.
PROSITEi PS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Kidney and Skin.
  2. Lubec G., Sunyer B., Chen W.-Q.
    Submitted (JAN-2009) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 479-486, IDENTIFICATION BY MASS SPECTROMETRY.
    Strain: OF1.
    Tissue: Hippocampus.

Entry informationi

Entry nameiSEM3D_MOUSE
AccessioniPrimary (citable) accession number: Q8BH34
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 27, 2005
Last sequence update: March 1, 2003
Last modified: November 26, 2014
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3