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Protein

Spondin-2

Gene

SPON2

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

Functioni

Cell adhesion protein that promotes adhesion and outgrowth of hippocampal embryonic neurons. Binds directly to bacteria and their components and functions as an opsonin for macrophage phagocytosis of bacteria. Essential in the initiation of the innate immune response and represents a unique pattern-recognition molecule in the ECM for microbial pathogens (By similarity). Binds bacterial lipopolysaccharide (LPS).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi42 – 421Divalent metal cationSequence Analysis
Metal bindingi122 – 1221Divalent metal cationSequence Analysis
Metal bindingi141 – 1411Divalent metal cationCurated
Sitei141 – 1411Important for metal ion-dependent interaction with integrinCurated
Metal bindingi160 – 1601Calcium
Metal bindingi188 – 1881Calcium
Metal bindingi192 – 1921Calcium; via carbonyl oxygen

GO - Molecular functioni

  1. antigen binding Source: Ensembl
  2. lipopolysaccharide binding Source: Ensembl
  3. metal ion binding Source: UniProtKB-KW

GO - Biological processi

  1. axon guidance Source: ProtInc
  2. cell adhesion Source: UniProtKB-KW
  3. cellular response to lipopolysaccharide Source: Ensembl
  4. defense response to fungus Source: Ensembl
  5. defense response to virus Source: Ensembl
  6. induction of bacterial agglutination Source: Ensembl
  7. innate immune response Source: UniProtKB-KW
  8. mast cell mediated immunity Source: Ensembl
  9. opsonization Source: Ensembl
  10. positive regulation of interleukin-6 production Source: Ensembl
  11. positive regulation of macrophage cytokine production Source: Ensembl
  12. positive regulation of tumor necrosis factor production Source: Ensembl
Complete GO annotation...

Keywords - Biological processi

Cell adhesion, Immunity, Innate immunity

Keywords - Ligandi

Calcium, Metal-binding

Enzyme and pathway databases

ReactomeiREACT_264269. O-glycosylation of TSR domain-containing proteins.

Names & Taxonomyi

Protein namesi
Recommended name:
Spondin-2
Alternative name(s):
Differentially expressed in cancerous and non-cancerous lung cells 1
Short name:
DIL-1
Mindin
Gene namesi
Name:SPON2
Synonyms:DIL1
ORF Names:UNQ435/PRO866
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:11253. SPON2.

Subcellular locationi

GO - Cellular componenti

  1. extracellular space Source: Ensembl
  2. extracellular vesicular exosome Source: UniProtKB
  3. proteinaceous extracellular matrix Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Extracellular matrix, Secreted

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi122 – 1221E → A: Strongly reduced metal-dependent interaction with integrin; when associated with A-141. 1 Publication
Mutagenesisi141 – 1411E → A: Strongly reduced metal-dependent interaction with integrin; when associated with A-122. 1 Publication

Organism-specific databases

PharmGKBiPA36083.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2626Sequence AnalysisAdd
BLAST
Chaini27 – 331305Spondin-2PRO_0000035870Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi35 ↔ 171PROSITE-ProRule annotation1 Publication
Glycosylationi283 – 2831C-linked (Man)

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ9BUD6.
PaxDbiQ9BUD6.
PRIDEiQ9BUD6.

PTM databases

PhosphoSiteiQ9BUD6.

Expressioni

Tissue specificityi

Expressed in normal lung tissue but not in lung carcinoma cell lines.1 Publication

Gene expression databases

BgeeiQ9BUD6.
CleanExiHS_SPON2.
ExpressionAtlasiQ9BUD6. baseline and differential.
GenevestigatoriQ9BUD6.

Organism-specific databases

HPAiHPA040170.
HPA043890.

Interactioni

Subunit structurei

Monomer. Interacts with integrin.1 Publication

Protein-protein interaction databases

BioGridi115686. 2 interactions.
STRINGi9606.ENSP00000290902.

Structurei

Secondary structure

1
331
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi41 – 499Combined sources
Turni53 – 553Combined sources
Beta strandi63 – 653Combined sources
Beta strandi67 – 7711Combined sources
Helixi92 – 1009Combined sources
Helixi104 – 11714Combined sources
Beta strandi120 – 1267Combined sources
Beta strandi129 – 1313Combined sources
Beta strandi135 – 1439Combined sources
Beta strandi148 – 15710Combined sources
Beta strandi159 – 16911Combined sources
Beta strandi178 – 1847Combined sources
Beta strandi190 – 1923Combined sources
Beta strandi215 – 2184Combined sources
Beta strandi230 – 2323Combined sources
Beta strandi236 – 2438Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3D34X-ray1.80A/B27-249[»]
ProteinModelPortaliQ9BUD6.
SMRiQ9BUD6. Positions 34-248.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9BUD6.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 221191SpondinPROSITE-ProRule annotationAdd
BLAST
Domaini277 – 33155TSP type-1PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 spondin domain.PROSITE-ProRule annotation
Contains 1 TSP type-1 domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiNOG279286.
HOGENOMiHOG000114626.
HOVERGENiHBG052919.
InParanoidiQ9BUD6.
OrthoDBiEOG71CFK9.
PhylomeDBiQ9BUD6.
TreeFamiTF326913.

Family and domain databases

InterProiIPR009465. Spondin_N.
IPR000884. Thrombospondin_1_rpt.
[Graphical view]
PfamiPF06468. Spond_N. 1 hit.
[Graphical view]
SMARTiSM00209. TSP1. 1 hit.
[Graphical view]
SUPFAMiSSF82895. SSF82895. 1 hit.
PROSITEiPS51020. SPONDIN. 1 hit.
PS50092. TSP1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9BUD6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MENPSPAAAL GKALCALLLA TLGAAGQPLG GESICSARAL AKYSITFTGK
60 70 80 90 100
WSQTAFPKQY PLFRPPAQWS SLLGAAHSSD YSMWRKNQYV SNGLRDFAER
110 120 130 140 150
GEAWALMKEI EAAGEALQSV HEVFSAPAVP SGTGQTSAEL EVQRRHSLVS
160 170 180 190 200
FVVRIVPSPD WFVGVDSLDL CDGDRWREQA ALDLYPYDAG TDSGFTFSSP
210 220 230 240 250
NFATIPQDTV TEITSSSPSH PANSFYYPRL KALPPIARVT LVRLRQSPRA
260 270 280 290 300
FIPPAPVLPS RDNEIVDSAS VPETPLDCEV SLWSSWGLCG GHCGRLGTKS
310 320 330
RTRYVRVQPA NNGSPCPELE EEAECVPDNC V
Length:331
Mass (Da):35,846
Last modified:November 30, 2010 - v3
Checksum:i8AF827142D921705
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti38 – 381R → G.
Corresponds to variant rs6836335 [ dbSNP | Ensembl ].
VAR_055149
Natural varianti40 – 401L → P.5 Publications
Corresponds to variant rs922697 [ dbSNP | Ensembl ].
VAR_019701
Natural varianti122 – 1221E → A.4 Publications
Corresponds to variant rs11247975 [ dbSNP | Ensembl ].
VAR_019702
Natural varianti242 – 2421V → L.4 Publications
Corresponds to variant rs2279279 [ dbSNP | Ensembl ].
VAR_019703

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB027466 mRNA. Translation: BAA85892.1.
AY358948 mRNA. Translation: AAQ89307.1.
AK074618 mRNA. Translation: BAC11092.1.
AK074770 mRNA. Translation: BAC11196.1.
AC092535 Genomic DNA. Translation: AAY40988.1.
CH471131 Genomic DNA. Translation: EAW82604.1.
CH471131 Genomic DNA. Translation: EAW82606.1.
BC002707 mRNA. Translation: AAH02707.1.
BC036341 mRNA. Translation: AAH36341.1.
CCDSiCCDS3347.1.
RefSeqiNP_001121797.1. NM_001128325.2.
NP_001185950.1. NM_001199021.1.
NP_036577.1. NM_012445.3.
UniGeneiHs.302963.
Hs.635350.
Hs.736956.

Genome annotation databases

EnsembliENST00000290902; ENSP00000290902; ENSG00000159674.
ENST00000431380; ENSP00000394832; ENSG00000159674.
ENST00000617421; ENSP00000483599; ENSG00000159674.
GeneIDi10417.
KEGGihsa:10417.
UCSCiuc003gco.4. human.

Polymorphism databases

DMDMi313104285.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB027466 mRNA. Translation: BAA85892.1.
AY358948 mRNA. Translation: AAQ89307.1.
AK074618 mRNA. Translation: BAC11092.1.
AK074770 mRNA. Translation: BAC11196.1.
AC092535 Genomic DNA. Translation: AAY40988.1.
CH471131 Genomic DNA. Translation: EAW82604.1.
CH471131 Genomic DNA. Translation: EAW82606.1.
BC002707 mRNA. Translation: AAH02707.1.
BC036341 mRNA. Translation: AAH36341.1.
CCDSiCCDS3347.1.
RefSeqiNP_001121797.1. NM_001128325.2.
NP_001185950.1. NM_001199021.1.
NP_036577.1. NM_012445.3.
UniGeneiHs.302963.
Hs.635350.
Hs.736956.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3D34X-ray1.80A/B27-249[»]
ProteinModelPortaliQ9BUD6.
SMRiQ9BUD6. Positions 34-248.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115686. 2 interactions.
STRINGi9606.ENSP00000290902.

PTM databases

PhosphoSiteiQ9BUD6.

Polymorphism databases

DMDMi313104285.

Proteomic databases

MaxQBiQ9BUD6.
PaxDbiQ9BUD6.
PRIDEiQ9BUD6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000290902; ENSP00000290902; ENSG00000159674.
ENST00000431380; ENSP00000394832; ENSG00000159674.
ENST00000617421; ENSP00000483599; ENSG00000159674.
GeneIDi10417.
KEGGihsa:10417.
UCSCiuc003gco.4. human.

Organism-specific databases

CTDi10417.
GeneCardsiGC04M001150.
HGNCiHGNC:11253. SPON2.
HPAiHPA040170.
HPA043890.
MIMi605918. gene.
neXtProtiNX_Q9BUD6.
PharmGKBiPA36083.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG279286.
HOGENOMiHOG000114626.
HOVERGENiHBG052919.
InParanoidiQ9BUD6.
OrthoDBiEOG71CFK9.
PhylomeDBiQ9BUD6.
TreeFamiTF326913.

Enzyme and pathway databases

ReactomeiREACT_264269. O-glycosylation of TSR domain-containing proteins.

Miscellaneous databases

EvolutionaryTraceiQ9BUD6.
GenomeRNAii10417.
NextBioi35490182.
PROiQ9BUD6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BUD6.
CleanExiHS_SPON2.
ExpressionAtlasiQ9BUD6. baseline and differential.
GenevestigatoriQ9BUD6.

Family and domain databases

InterProiIPR009465. Spondin_N.
IPR000884. Thrombospondin_1_rpt.
[Graphical view]
PfamiPF06468. Spond_N. 1 hit.
[Graphical view]
SMARTiSM00209. TSP1. 1 hit.
[Graphical view]
SUPFAMiSSF82895. SSF82895. 1 hit.
PROSITEiPS51020. SPONDIN. 1 hit.
PS50092. TSP1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification of genes (SPON2 and C20orf2) differentially expressed between cancerous and noncancerous lung cells by mRNA differential display."
    Manda R., Kohno T., Matsuno Y., Takenoshita S., Kuwano H., Yokota J.
    Genomics 61:5-14(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, VARIANTS PRO-40 AND ALA-122.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANTS PRO-40 AND LEU-242.
  3. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANTS PRO-40; ALA-122 AND LEU-242.
  4. "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(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ALA-122.
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANTS PRO-40; ALA-122 AND LEU-242.
  6. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANTS PRO-40 AND LEU-242.
    Tissue: Colon and Placenta.
  7. "Structure of the F-spondin domain of mindin, an integrin ligand and pattern recognition molecule."
    Li Y., Cao C., Jia W., Yu L., Mo M., Wang Q., Huang Y., Lim J.-M., Ishihara M., Wells L., Azadi P., Robinson H., He Y.-W., Zhang L., Mariuzza R.A.
    EMBO J. 28:286-297(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 27-249 IN COMPLEX WITH METAL IONS, PARTIAL PROTEIN SEQUENCE, IDENTIFICATION BY MASS SPECTROMETRY, SUBUNIT, GLYCOSYLATION AT TRP-283, INTERACTION WITH INTEGRIN AND BACTERIAL LIPOPOLYSACCHARIDE, MUTAGENESIS OF GLU-122 AND GLU-141, DISULFIDE BOND.

Entry informationi

Entry nameiSPON2_HUMAN
AccessioniPrimary (citable) accession number: Q9BUD6
Secondary accession number(s): D3DVN9, Q4W5N4, Q9ULW1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 27, 2004
Last sequence update: November 30, 2010
Last modified: April 1, 2015
This is version 114 of the entry and version 3 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 4
    Human chromosome 4: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.