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O43854 (EDIL3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 121. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
EGF-like repeat and discoidin I-like domain-containing protein 3
Alternative name(s):
Developmentally-regulated endothelial cell locus 1 protein
Integrin-binding protein DEL1
Gene names
Name:EDIL3
Synonyms:DEL1
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length480 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Promotes adhesion of endothelial cells through interaction with the alpha-v/beta-3 integrin receptor. Inhibits formation of vascular-like structures. May be involved in regulation of vascular morphogenesis of remodeling in embryonic development.

Subcellular location

Secreted.

Domain

EGF2 and EGF3 form a rigid rod via an interdomain calcium ion binding site, while the long linker between EGF1 and EGF2 lends considerable flexibility to EGF1.

Sequence similarities

Contains 3 EGF-like domains.

Contains 2 F5/8 type C domains.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O43854-1)

Also known as: Long;

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: O43854-2)

Also known as: Short; Z20;

The sequence of this isoform differs from the canonical sequence as follows:
     66-66: A → G
     67-76: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2323 Potential
Chain24 – 480457EGF-like repeat and discoidin I-like domain-containing protein 3
PRO_0000007522

Regions

Domain24 – 6037EGF-like 1
Domain74 – 11744EGF-like 2
Domain119 – 15537EGF-like 3
Domain158 – 314157F5/8 type C 1
Domain319 – 476158F5/8 type C 2
Motif96 – 983Cell attachment site

Sites

Metal binding1191Calcium
Metal binding1201Calcium; via carbonyl oxygen
Metal binding1221Calcium
Metal binding1361Calcium
Metal binding1371Calcium; via carbonyl oxygen

Amino acid modifications

Glycosylation731O-linked (GalNAc...) Probable
Glycosylation881O-linked (Fuc...) Ref.5
Glycosylation1401N-linked (GlcNAc...) Ref.5
Disulfide bond26 ↔ 37 Ref.5
Disulfide bond31 ↔ 48 Ref.5
Disulfide bond50 ↔ 59 Ref.5
Disulfide bond78 ↔ 89 Ref.5
Disulfide bond83 ↔ 105 Ref.5
Disulfide bond107 ↔ 116 Ref.5
Disulfide bond123 ↔ 134 Ref.5
Disulfide bond128 ↔ 143 Ref.5
Disulfide bond145 ↔ 154 Ref.5
Disulfide bond158 ↔ 314 By similarity
Disulfide bond301 ↔ 305 By similarity
Disulfide bond319 ↔ 476 By similarity

Natural variations

Alternative sequence661A → G in isoform 2.
VSP_050006
Alternative sequence67 – 7610Missing in isoform 2.
VSP_050007

Experimental info

Sequence conflict161G → S in AAH30828. Ref.4

Secondary structure

....................... 480
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 (Long) [UniParc].

Last modified June 1, 1998. Version 1.
Checksum: F7171E23A309FD48

FASTA48053,765
        10         20         30         40         50         60 
MKRSVAVWLL VGLSLGVPQF GKGDICDPNP CENGGICLPG LADGSFSCEC PDGFTDPNCS 

        70         80         90        100        110        120 
SVVEVASDEE EPTSAGPCTP NPCHNGGTCE ISEAYRGDTF IGYVCKCPRG FNGIHCQHNI 

       130        140        150        160        170        180 
NECEVEPCKN GGICTDLVAN YSCECPGEFM GRNCQYKCSG PLGIEGGIIS NQQITASSTH 

       190        200        210        220        230        240 
RALFGLQKWY PYYARLNKKG LINAWTAAEN DRWPWIQINL QRKMRVTGVI TQGAKRIGSP 

       250        260        270        280        290        300 
EYIKSYKIAY SNDGKTWAMY KVKGTNEDMV FRGNIDNNTP YANSFTPPIK AQYVRLYPQV 

       310        320        330        340        350        360 
CRRHCTLRME LLGCELSGCS EPLGMKSGHI QDYQITASSI FRTLNMDMFT WEPRKARLDK 

       370        380        390        400        410        420 
QGKVNAWTSG HNDQSQWLQV DLLVPTKVTG IITQGAKDFG HVQFVGSYKL AYSNDGEHWT 

       430        440        450        460        470        480 
VYQDEKQRKD KVFQGNFDND THRKNVIDPP IYARHIRILP WSWYGRITLR SELLGCTEEE 

« Hide

Isoform 2 (Short) (Z20) [UniParc].

Checksum: EFF139A13FE5337A
Show »

FASTA47052,748

References

« Hide 'large scale' references
[1]"Cloning and characterization of developmental endothelial locus-1: an embryonic endothelial cell protein that binds the alphavbeta3 integrin receptor."
Hidai C., Zupancic T.J., Penta K., Mikhail A., Kawana M., Quertermous E.E., Aoka Y., Fukagawa M., Matsui Y., Platika D., Auerbach R., Hogan B.L.M., Snodgrass R., Quertermous T.
Genes Dev. 12:21-33(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), CHARACTERIZATION.
Tissue: Embryonic lung.
[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. expand/collapse author list , 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).
Tissue: Trachea.
[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. expand/collapse author list , 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 (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[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 1 AND 2).
Tissue: Brain.
[5]"The RGD finger of Del-1 is a unique structural feature critical for integrin binding."
Schurpf T., Chen Q., Liu J.H., Wang R., Springer T.A., Wang J.H.
FASEB J. 26:3412-3420(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) OF 24-157, RGD MOTIF, DISULFIDE BONDS, CALCIUM-BINDING SITES, GLYCOSYLATION AT THR-73; THR-88 AND ASN-140.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U70312 mRNA. Translation: AAC02648.1.
U70313 mRNA. Translation: AAC02649.1.
AK312858 mRNA. Translation: BAG35710.1.
CH471084 Genomic DNA. Translation: EAW95917.1.
CH471084 Genomic DNA. Translation: EAW95918.1.
BC030828 mRNA. Translation: AAH30828.1.
BC053656 mRNA. Translation: AAH53656.1.
CCDSCCDS4062.1. [O43854-1]
CCDS64195.1. [O43854-2]
RefSeqNP_001265571.1. NM_001278642.1. [O43854-2]
NP_005702.3. NM_005711.4. [O43854-1]
UniGeneHs.482730.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4D90X-ray2.60A/B24-157[»]
ProteinModelPortalO43854.
SMRO43854. Positions 26-480.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid115394. 3 interactions.
IntActO43854. 2 interactions.
STRING9606.ENSP00000296591.

PTM databases

PhosphoSiteO43854.

Proteomic databases

MaxQBO43854.
PaxDbO43854.
PRIDEO43854.

Protocols and materials databases

DNASU10085.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000296591; ENSP00000296591; ENSG00000164176. [O43854-1]
ENST00000380138; ENSP00000369483; ENSG00000164176. [O43854-2]
GeneID10085.
KEGGhsa:10085.
UCSCuc003kio.1. human. [O43854-1]
uc003kip.1. human. [O43854-2]

Organism-specific databases

CTD10085.
GeneCardsGC05M083236.
HGNCHGNC:3173. EDIL3.
HPAHPA020415.
MIM606018. gene.
neXtProtNX_O43854.
PharmGKBPA27613.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG151278.
HOGENOMHOG000236278.
HOVERGENHBG002385.
InParanoidO43854.
OMANINECEA.
OrthoDBEOG7ZWD1D.
PhylomeDBO43854.
TreeFamTF330156.

Gene expression databases

BgeeO43854.
CleanExHS_EDIL3.
GenevestigatorO43854.

Family and domain databases

Gene3D2.60.120.260. 2 hits.
InterProIPR000421. Coagulation_fac_5/8-C_type_dom.
IPR000742. EG-like_dom.
IPR001881. EGF-like_Ca-bd_dom.
IPR013032. EGF-like_CS.
IPR000152. EGF-type_Asp/Asn_hydroxyl_site.
IPR018097. EGF_Ca-bd_CS.
IPR008979. Galactose-bd-like.
[Graphical view]
PfamPF00008. EGF. 2 hits.
PF00754. F5_F8_type_C. 2 hits.
[Graphical view]
SMARTSM00181. EGF. 2 hits.
SM00179. EGF_CA. 1 hit.
SM00231. FA58C. 2 hits.
[Graphical view]
SUPFAMSSF49785. SSF49785. 2 hits.
PROSITEPS00010. ASX_HYDROXYL. 1 hit.
PS00022. EGF_1. 2 hits.
PS01186. EGF_2. 2 hits.
PS50026. EGF_3. 3 hits.
PS01187. EGF_CA. 1 hit.
PS01285. FA58C_1. 2 hits.
PS01286. FA58C_2. 2 hits.
PS50022. FA58C_3. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

GenomeRNAi10085.
NextBio38137.
PROO43854.
SOURCESearch...

Entry information

Entry nameEDIL3_HUMAN
AccessionPrimary (citable) accession number: O43854
Secondary accession number(s): B2R763 expand/collapse secondary AC list , O43855, Q5D094, Q8N610
Entry history
Integrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: June 1, 1998
Last modified: July 9, 2014
This is version 121 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 5

Human chromosome 5: entries, gene names and cross-references to MIM