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Protein

EGF-like repeat and discoidin I-like domain-containing protein 3

Gene

EDIL3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: 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)DescriptionActionsGraphical viewLength
Metal bindingi119Calcium1
Metal bindingi120Calcium; via carbonyl oxygen1
Metal bindingi122Calcium1
Metal bindingi136Calcium1
Metal bindingi137Calcium; via carbonyl oxygen1

GO - Molecular functioni

  • calcium ion binding Source: InterPro
  • integrin binding Source: ProtInc

GO - Biological processi

Keywordsi

Molecular functionDevelopmental protein
Biological processCell adhesion
LigandCalcium, 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
Proteomesi
  • UP000005640 Componenti: Chromosome 5

Organism-specific databases

EuPathDBiHostDB:ENSG00000164176.12.
HGNCiHGNC:3173. EDIL3.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi10085.
OpenTargetsiENSG00000164176.
PharmGKBiPA27613.

Polymorphism and mutation databases

BioMutaiEDIL3.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 23Sequence analysisAdd BLAST23
ChainiPRO_000000752224 – 480EGF-like repeat and discoidin I-like domain-containing protein 3Add BLAST457

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi26 ↔ 371 Publication
Disulfide bondi31 ↔ 481 Publication
Disulfide bondi50 ↔ 591 Publication
Glycosylationi73O-linked (GalNAc...) threonine1 Publication1
Disulfide bondi78 ↔ 891 Publication
Disulfide bondi83 ↔ 1051 Publication
Glycosylationi88O-linked (Fuc...) threonine1 Publication1
Disulfide bondi107 ↔ 1161 Publication
Disulfide bondi123 ↔ 1341 Publication
Disulfide bondi128 ↔ 1431 Publication
Glycosylationi140N-linked (GlcNAc...) asparagine1 Publication1
Disulfide bondi145 ↔ 1541 Publication
Disulfide bondi158 ↔ 314By similarity
Disulfide bondi301 ↔ 305By similarity
Disulfide bondi319 ↔ 476By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

EPDiO43854.
MaxQBiO43854.
PaxDbiO43854.
PeptideAtlasiO43854.
PRIDEiO43854.

PTM databases

iPTMnetiO43854.
PhosphoSitePlusiO43854.

Expressioni

Gene expression databases

BgeeiENSG00000164176.
CleanExiHS_EDIL3.
GenevisibleiO43854. HS.

Organism-specific databases

HPAiHPA020415.

Interactioni

GO - Molecular functioni

  • integrin binding Source: ProtInc

Protein-protein interaction databases

BioGridi115394. 11 interactors.
ELMiO43854.
IntActiO43854. 2 interactors.
STRINGi9606.ENSP00000296591.

Structurei

Secondary structure

1480
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi32 – 34Combined sources3
Beta strandi36 – 38Combined sources3
Beta strandi47 – 49Combined sources3
Turni56 – 59Combined sources4
Turni66 – 70Combined sources5
Beta strandi88 – 91Combined sources4
Beta strandi103 – 106Combined sources4
Beta strandi111 – 113Combined sources3
Turni122 – 125Combined sources4
Beta strandi133 – 137Combined sources5
Beta strandi140 – 144Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4D90X-ray2.60A/B24-157[»]
ProteinModelPortaliO43854.
SMRiO43854.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini24 – 60EGF-like 1PROSITE-ProRule annotationAdd BLAST37
Domaini74 – 117EGF-like 2PROSITE-ProRule annotationAdd BLAST44
Domaini119 – 155EGF-like 3PROSITE-ProRule annotationAdd BLAST37
Domaini158 – 314F5/8 type C 1PROSITE-ProRule annotationAdd BLAST157
Domaini319 – 476F5/8 type C 2PROSITE-ProRule annotationAdd BLAST158

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi96 – 98Cell attachment site3

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.

Keywords - Domaini

EGF-like domain, Repeat, Signal

Phylogenomic databases

eggNOGiENOG410IFBC. Eukaryota.
ENOG41114BV. LUCA.
GeneTreeiENSGT00760000119073.
HOGENOMiHOG000236278.
HOVERGENiHBG002385.
InParanoidiO43854.
OMAiNINECEA.
OrthoDBiEOG091G071G.
PhylomeDBiO43854.
TreeFamiTF330156.

Family and domain databases

Gene3Di2.60.120.260. 2 hits.
InterProiView protein in InterPro
IPR029828. EDIL-3.
IPR001881. EGF-like_Ca-bd_dom.
IPR013032. EGF-like_CS.
IPR000742. EGF-like_dom.
IPR000152. EGF-type_Asp/Asn_hydroxyl_site.
IPR018097. EGF_Ca-bd_CS.
IPR000421. FA58C.
IPR008979. Galactose-bd-like_sf.
PANTHERiPTHR44122:SF3. PTHR44122:SF3. 1 hit.
PfamiView protein in Pfam
PF00008. EGF. 2 hits.
PF00754. F5_F8_type_C. 2 hits.
PF12661. hEGF. 1 hit.
SMARTiView protein in SMART
SM00181. EGF. 3 hits.
SM00179. EGF_CA. 3 hits.
SM00231. FA58C. 2 hits.
SUPFAMiSSF49785. SSF49785. 2 hits.
PROSITEiView protein in PROSITE
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.

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: 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

        10         20         30         40         50
MKRSVAVWLL VGLSLGVPQF GKGDICDPNP CENGGICLPG LADGSFSCEC
60 70 80 90 100
PDGFTDPNCS SVVEVASDEE EPTSAGPCTP NPCHNGGTCE ISEAYRGDTF
110 120 130 140 150
IGYVCKCPRG FNGIHCQHNI NECEVEPCKN GGICTDLVAN YSCECPGEFM
160 170 180 190 200
GRNCQYKCSG PLGIEGGIIS NQQITASSTH RALFGLQKWY PYYARLNKKG
210 220 230 240 250
LINAWTAAEN DRWPWIQINL QRKMRVTGVI TQGAKRIGSP EYIKSYKIAY
260 270 280 290 300
SNDGKTWAMY KVKGTNEDMV FRGNIDNNTP YANSFTPPIK AQYVRLYPQV
310 320 330 340 350
CRRHCTLRME LLGCELSGCS EPLGMKSGHI QDYQITASSI FRTLNMDMFT
360 370 380 390 400
WEPRKARLDK QGKVNAWTSG HNDQSQWLQV DLLVPTKVTG IITQGAKDFG
410 420 430 440 450
HVQFVGSYKL AYSNDGEHWT VYQDEKQRKD KVFQGNFDND THRKNVIDPP
460 470 480
IYARHIRILP WSWYGRITLR SELLGCTEEE
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

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti16G → S in AAH30828 (PubMed:15489334).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_05000666A → G in isoform 2. 2 Publications1
Alternative sequenceiVSP_05000767 – 76Missing in isoform 2. 2 Publications10

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.3. human. [O43854-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiEDIL3_HUMAN
AccessioniPrimary (citable) accession number: O43854
Secondary accession number(s): B2R763
, O43855, Q5D094, Q8N610
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: June 1, 1998
Last modified: November 22, 2017
This is version 148 of the entry and version 1 of the sequence. See 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