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O43854

- EDIL3_HUMAN

UniProt

O43854 - EDIL3_HUMAN

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Protein
EGF-like repeat and discoidin I-like domain-containing protein 3
Gene
EDIL3, DEL1
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi119 – 1191Calcium
Metal bindingi120 – 1201Calcium; via carbonyl oxygen
Metal bindingi122 – 1221Calcium
Metal bindingi136 – 1361Calcium
Metal bindingi137 – 1371Calcium; via carbonyl oxygen

GO - Molecular functioni

  1. calcium ion binding Source: InterPro
  2. integrin binding Source: ProtInc
Complete GO annotation...

GO - Biological processi

  1. cell adhesion Source: UniProtKB-KW
  2. multicellular organismal development Source: UniProtKB-KW
  3. positive regulation of cell-substrate adhesion Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended 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 namesi
Name:EDIL3
Synonyms:DEL1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 5

Organism-specific databases

HGNCiHGNC:3173. EDIL3.

Subcellular locationi

GO - Cellular componenti

  1. extracellular vesicular exosome Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA27613.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2323 Reviewed prediction
Add
BLAST
Chaini24 – 480457EGF-like repeat and discoidin I-like domain-containing protein 3
PRO_0000007522Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi26 ↔ 371 Publication
Disulfide bondi31 ↔ 481 Publication
Disulfide bondi50 ↔ 591 Publication
Glycosylationi73 – 731O-linked (GalNAc...) Inferred
Disulfide bondi78 ↔ 891 Publication
Disulfide bondi83 ↔ 1051 Publication
Glycosylationi88 – 881O-linked (Fuc...)1 Publication
Disulfide bondi107 ↔ 1161 Publication
Disulfide bondi123 ↔ 1341 Publication
Disulfide bondi128 ↔ 1431 Publication
Glycosylationi140 – 1401N-linked (GlcNAc...)1 Publication
Disulfide bondi145 ↔ 1541 Publication
Disulfide bondi158 ↔ 314 By similarity
Disulfide bondi301 ↔ 305 By similarity
Disulfide bondi319 ↔ 476 By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiO43854.
PaxDbiO43854.
PRIDEiO43854.

PTM databases

PhosphoSiteiO43854.

Expressioni

Gene expression databases

BgeeiO43854.
CleanExiHS_EDIL3.
GenevestigatoriO43854.

Organism-specific databases

HPAiHPA020415.

Interactioni

Protein-protein interaction databases

BioGridi115394. 3 interactions.
IntActiO43854. 2 interactions.
STRINGi9606.ENSP00000296591.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi32 – 343
Beta strandi36 – 383
Beta strandi47 – 493
Turni56 – 594
Turni66 – 705
Beta strandi88 – 914
Beta strandi103 – 1064
Beta strandi111 – 1133
Turni122 – 1254
Beta strandi133 – 1375
Beta strandi140 – 1445

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4D90X-ray2.60A/B24-157[»]
ProteinModelPortaliO43854.
SMRiO43854. Positions 26-480.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini24 – 6037EGF-like 1
Add
BLAST
Domaini74 – 11744EGF-like 2
Add
BLAST
Domaini119 – 15537EGF-like 3
Add
BLAST
Domaini158 – 314157F5/8 type C 1
Add
BLAST
Domaini319 – 476158F5/8 type C 2
Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi96 – 983Cell attachment site

Domaini

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 similaritiesi

Contains 3 EGF-like domains.
Contains 2 F5/8 type C domains.

Keywords - Domaini

EGF-like domain, Repeat, Signal

Phylogenomic databases

eggNOGiNOG151278.
HOGENOMiHOG000236278.
HOVERGENiHBG002385.
InParanoidiO43854.
OMAiNINECEA.
OrthoDBiEOG7ZWD1D.
PhylomeDBiO43854.
TreeFamiTF330156.

Family and domain databases

Gene3Di2.60.120.260. 2 hits.
InterProiIPR000421. 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]
PfamiPF00008. EGF. 2 hits.
PF00754. F5_F8_type_C. 2 hits.
[Graphical view]
SMARTiSM00181. EGF. 2 hits.
SM00179. EGF_CA. 1 hit.
SM00231. FA58C. 2 hits.
[Graphical view]
SUPFAMiSSF49785. SSF49785. 2 hits.
PROSITEiPS00010. 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]

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. Align

Isoform 1 (identifier: O43854-1) [UniParc]FASTAAdd to Basket

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.

« Hide

MKRSVAVWLL VGLSLGVPQF GKGDICDPNP CENGGICLPG LADGSFSCEC    50
PDGFTDPNCS SVVEVASDEE EPTSAGPCTP NPCHNGGTCE ISEAYRGDTF 100
IGYVCKCPRG FNGIHCQHNI NECEVEPCKN GGICTDLVAN YSCECPGEFM 150
GRNCQYKCSG PLGIEGGIIS NQQITASSTH RALFGLQKWY PYYARLNKKG 200
LINAWTAAEN DRWPWIQINL QRKMRVTGVI TQGAKRIGSP EYIKSYKIAY 250
SNDGKTWAMY KVKGTNEDMV FRGNIDNNTP YANSFTPPIK AQYVRLYPQV 300
CRRHCTLRME LLGCELSGCS EPLGMKSGHI QDYQITASSI FRTLNMDMFT 350
WEPRKARLDK QGKVNAWTSG HNDQSQWLQV DLLVPTKVTG IITQGAKDFG 400
HVQFVGSYKL AYSNDGEHWT VYQDEKQRKD KVFQGNFDND THRKNVIDPP 450
IYARHIRILP WSWYGRITLR SELLGCTEEE 480
Length:480
Mass (Da):53,765
Last modified:June 1, 1998 - v1
Checksum:iF7171E23A309FD48
GO
Isoform 2 (identifier: O43854-2) [UniParc]FASTAAdd to Basket

Also known as: Short, Z20

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

Show »
Length:470
Mass (Da):52,748
Checksum:iEFF139A13FE5337A
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei66 – 661A → G in isoform 2.
VSP_050006
Alternative sequencei67 – 7610Missing in isoform 2.
VSP_050007

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti16 – 161G → S in AAH30828. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS4062.1. [O43854-1]
CCDS64195.1. [O43854-2]
RefSeqiNP_001265571.1. NM_001278642.1. [O43854-2]
NP_005702.3. NM_005711.4. [O43854-1]
UniGeneiHs.482730.

Genome annotation databases

EnsembliENST00000296591; ENSP00000296591; ENSG00000164176. [O43854-1]
ENST00000380138; ENSP00000369483; ENSG00000164176. [O43854-2]
GeneIDi10085.
KEGGihsa:10085.
UCSCiuc003kio.1. human. [O43854-1]
uc003kip.1. human. [O43854-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS4062.1. [O43854-1 ]
CCDS64195.1. [O43854-2 ]
RefSeqi NP_001265571.1. NM_001278642.1. [O43854-2 ]
NP_005702.3. NM_005711.4. [O43854-1 ]
UniGenei Hs.482730.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4D90 X-ray 2.60 A/B 24-157 [» ]
ProteinModelPortali O43854.
SMRi O43854. Positions 26-480.
ModBasei Search...

Protein-protein interaction databases

BioGridi 115394. 3 interactions.
IntActi O43854. 2 interactions.
STRINGi 9606.ENSP00000296591.

PTM databases

PhosphoSitei O43854.

Proteomic databases

MaxQBi O43854.
PaxDbi O43854.
PRIDEi O43854.

Protocols and materials databases

DNASUi 10085.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000296591 ; ENSP00000296591 ; ENSG00000164176 . [O43854-1 ]
ENST00000380138 ; ENSP00000369483 ; ENSG00000164176 . [O43854-2 ]
GeneIDi 10085.
KEGGi hsa:10085.
UCSCi uc003kio.1. human. [O43854-1 ]
uc003kip.1. human. [O43854-2 ]

Organism-specific databases

CTDi 10085.
GeneCardsi GC05M083236.
HGNCi HGNC:3173. EDIL3.
HPAi HPA020415.
MIMi 606018. gene.
neXtProti NX_O43854.
PharmGKBi PA27613.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG151278.
HOGENOMi HOG000236278.
HOVERGENi HBG002385.
InParanoidi O43854.
OMAi NINECEA.
OrthoDBi EOG7ZWD1D.
PhylomeDBi O43854.
TreeFami TF330156.

Miscellaneous databases

GenomeRNAii 10085.
NextBioi 38137.
PROi O43854.
SOURCEi Search...

Gene expression databases

Bgeei O43854.
CleanExi HS_EDIL3.
Genevestigatori O43854.

Family and domain databases

Gene3Di 2.60.120.260. 2 hits.
InterProi IPR000421. 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 ]
Pfami PF00008. EGF. 2 hits.
PF00754. F5_F8_type_C. 2 hits.
[Graphical view ]
SMARTi SM00181. EGF. 2 hits.
SM00179. EGF_CA. 1 hit.
SM00231. FA58C. 2 hits.
[Graphical view ]
SUPFAMi SSF49785. SSF49785. 2 hits.
PROSITEi PS00010. 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 ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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. 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.

Entry informationi

Entry nameiEDIL3_HUMAN
AccessioniPrimary (citable) accession number: O43854
Secondary accession number(s): B2R763
, O43855, Q5D094, Q8N610
Entry historyi
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 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, Reference proteome

Documents

  1. Human chromosome 5
    Human chromosome 5: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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