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Protein

Nidogen-2

Gene

Nid2

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Cell adhesion glycoprotein. Might be involved in osteoblast differentiation. It probably has a role in cell-extracellular matrix interactions (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Nidogen-2
Short name:
NID-2
Gene namesi
Name:Nid2
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi1311685. Nid2.

Subcellular locationi

GO - Cellular componenti

  • basement membrane Source: UniProtKB-SubCell
  • cell surface Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Basement membrane, Extracellular matrix, Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3030By similarityAdd
BLAST
Chaini31 – 13961366Nidogen-2PRO_0000392064Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi504 ↔ 517By similarity
Disulfide bondi511 ↔ 526By similarity
Disulfide bondi528 ↔ 539By similarity
Glycosylationi674 – 6741N-linked (GlcNAc...)By similarity
Glycosylationi719 – 7191N-linked (GlcNAc...)Sequence analysis
Disulfide bondi779 ↔ 792By similarity
Disulfide bondi786 ↔ 802By similarity
Disulfide bondi804 ↔ 815By similarity
Disulfide bondi821 ↔ 834By similarity
Disulfide bondi828 ↔ 843By similarity
Disulfide bondi845 ↔ 858By similarity
Disulfide bondi868 ↔ 883By similarity
Disulfide bondi875 ↔ 893By similarity
Disulfide bondi895 ↔ 906By similarity
Disulfide bondi912 ↔ 923By similarity
Disulfide bondi917 ↔ 932By similarity
Disulfide bondi961 ↔ 984By similarity
Disulfide bondi995 ↔ 1002By similarity
Disulfide bondi1004 ↔ 1026By similarity
Disulfide bondi1040 ↔ 1064By similarity
Disulfide bondi1075 ↔ 1082By similarity
Disulfide bondi1084 ↔ 1105By similarity

Post-translational modificationi

Highly N- and O-glycosylated.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiB5DFC9.
PRIDEiB5DFC9.

PTM databases

iPTMnetiB5DFC9.
UniCarbKBiB5DFC9.

Interactioni

Subunit structurei

Interacts with LAMA2. Interacts with COL13A1 (By similarity).By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000000383.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini108 – 274167NIDOPROSITE-ProRule annotationAdd
BLAST
Domaini500 – 54041EGF-like 1PROSITE-ProRule annotationAdd
BLAST
Domaini544 – 774231Nidogen G2 beta-barrelPROSITE-ProRule annotationAdd
BLAST
Domaini775 – 81642EGF-like 2PROSITE-ProRule annotationAdd
BLAST
Domaini817 – 85943EGF-like 3; calcium-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini864 – 90744EGF-like 4PROSITE-ProRule annotationAdd
BLAST
Domaini908 – 94437EGF-like 5; calcium-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini958 – 102669Thyroglobulin type-1 1PROSITE-ProRule annotationAdd
BLAST
Domaini1037 – 110569Thyroglobulin type-1 2PROSITE-ProRule annotationAdd
BLAST
Repeati1175 – 121844LDL-receptor class B 1Add
BLAST
Repeati1219 – 126143LDL-receptor class B 2Add
BLAST
Repeati1262 – 130645LDL-receptor class B 3Add
BLAST
Repeati1307 – 134842LDL-receptor class B 4Add
BLAST

Sequence similaritiesi

Contains 5 EGF-like domains.PROSITE-ProRule annotation
Contains 4 LDL-receptor class B repeats.PROSITE-ProRule annotation
Contains 1 NIDO domain.PROSITE-ProRule annotation
Contains 1 nidogen G2 beta-barrel domain.PROSITE-ProRule annotation
Contains 2 thyroglobulin type-1 domains.PROSITE-ProRule annotation

Keywords - Domaini

EGF-like domain, Repeat, Signal

Phylogenomic databases

eggNOGiENOG410IMYX. Eukaryota.
ENOG4111DVZ. LUCA.
HOGENOMiHOG000072712.
HOVERGENiHBG006498.
InParanoidiB5DFC9.
KOiK06826.
OrthoDBiEOG7M0NQN.
PhylomeDBiB5DFC9.
TreeFamiTF320666.

Family and domain databases

Gene3Di2.120.10.30. 1 hit.
2.40.155.10. 2 hits.
4.10.800.10. 2 hits.
InterProiIPR011042. 6-blade_b-propeller_TolB-like.
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.
IPR006605. G2_nidogen/fibulin_G2F.
IPR009017. GFP.
IPR023413. GFP-like.
IPR009030. Growth_fac_rcpt_.
IPR000033. LDLR_classB_rpt.
IPR003886. NIDO_dom.
IPR000716. Thyroglobulin_1.
[Graphical view]
PfamiPF07645. EGF_CA. 2 hits.
PF07474. G2F. 1 hit.
PF00058. Ldl_recept_b. 2 hits.
PF06119. NIDO. 1 hit.
PF00086. Thyroglobulin_1. 2 hits.
[Graphical view]
SMARTiSM00181. EGF. 5 hits.
SM00179. EGF_CA. 4 hits.
SM00682. G2F. 1 hit.
SM00135. LY. 4 hits.
SM00539. NIDO. 1 hit.
SM00211. TY. 2 hits.
[Graphical view]
SUPFAMiSSF54511. SSF54511. 1 hit.
SSF57184. SSF57184. 2 hits.
SSF57610. SSF57610. 2 hits.
PROSITEiPS00010. ASX_HYDROXYL. 3 hits.
PS01186. EGF_2. 4 hits.
PS50026. EGF_3. 5 hits.
PS01187. EGF_CA. 2 hits.
PS51120. LDLRB. 4 hits.
PS51220. NIDO. 1 hit.
PS50993. NIDOGEN_G2. 1 hit.
PS00484. THYROGLOBULIN_1_1. 2 hits.
PS51162. THYROGLOBULIN_1_2. 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. AlignAdd to basket

Isoform 1 (identifier: B5DFC9-1) [UniParc]FASTAAdd to basket

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
MSWDPTAGRL APPSPLSLLL VLVLLSRVGA LRPEELFPYG ESWGDRLLPE
60 70 80 90 100
GDDESSAAVK LAVPLRFYDA QFSNLYVGTN GIISTQDFPR ETQYVDDDFP
110 120 130 140 150
TDFPAIAPFL ADIDTSHSRG RILYREDTSQ AVLSLAARYV RTGFPLTGSS
160 170 180 190 200
FTPTHAFLAT WEHVGAYEEV RRGAAPSGEL NTFQAVLASD ESDTYALFLY
210 220 230 240 250
PANGLQFFGT RPKESYNVQL QLPARVGFCR GEADDLKREA LYFSLTNTEQ
260 270 280 290 300
SVKNLYQLSN LGIPGAWAFH IGSRLALDNV RPATVGGDHS TARSSALEHS
310 320 330 340 350
FNHAAALESY TEDSFDYYNE NEEDVEYPPI EPGEALEGHS RIDVSFNSEV
360 370 380 390 400
NPTSPDSDHA SPLPHPAPGN WPSYRETESA SLDPQTKQGP PVGEVEVLDF
410 420 430 440 450
KDPAELLDQT GTRTPAPPGA DAAFLTPGRE DLGNRDTQSY PEARPVPSEP
460 470 480 490 500
DVPVAPLERE ILPNYPESGH VPPLSGGRYV VGLEDHVSSK DQVFTYNGAN
510 520 530 540 550
RETCEHSHGQ CSRHAFCTDY TTGFCCHCQS RFYGNGRHCV PEGAPHRVNG
560 570 580 590 600
KVSGHLQVGH MPVHFTDVDL HAYIVSNDGR AYTAISQIPQ PAAQALLPVL
610 620 630 640 650
PIGGLFGWLF ALEKPGSENG FSLTGATFVH DVEVTFHPGE ERVRITQTAE
660 670 680 690 700
GLDPENYLSL NTNIEGQVPF IPANFTAHIA PYQEFYHHRD SVVTSSSSRS
710 720 730 740 750
FSLISGSINQ TRSYRIDQNI TYKACSHAPR HLAVPATQQL TVDRAFALYS
760 770 780 790 800
EEEGVLRFAV TNQIGPVEVD SAPTAVNPCY DGSHTCDTTA RCHPGTGVDY
810 820 830 840 850
TCECTPGFQG DGRSCVDVNE CATGFHRCGP NSVCVNLVGS YRCECRSGYE
860 870 880 890 900
FADDRHTCVL IAPPPNPCLD GSHTCAPEGQ ARCIHHGGSS FSCACLPGFV
910 920 930 940 950
GTGHQCSDVD ECAENRCHGA AICYNTPGSF SCRCQPGYHG DGFHCASDTV
960 970 980 990 1000
PEDSISGLKP CEYQQRYAQA QHAHAGSRIH IPQCDDQGNF VPLQCHGSTG
1010 1020 1030 1040 1050
FCWCVDQNGH EVPGTQTPPG STPPHCGPPP EPTQRPRTVC ERWRESLLEH
1060 1070 1080 1090 1100
YGGTPRDDQY VPQCDDLGHF IPLQCHGKSD FCWCVDKDGR ELPGTRSQPG
1110 1120 1130 1140 1150
TMPACIPTVA PPVVRPTPRP DVTPPAVGTF LLYAQGQQIG HLPLNGSRLQ
1160 1170 1180 1190 1200
KDAARTLLSL HGSIVVGIDY DCRERMVYWT DVAGRTISRA SLEAGAEPET
1210 1220 1230 1240 1250
IITSGLISPE GLAIDHFRRT MYWTDSGLDK IERAGLDGSE RKVLFHTDLV
1260 1270 1280 1290 1300
NPRAITVDPI RGNLYWTDWN REAPKIETSS LDGENRRILI NKDIGLPNGL
1310 1320 1330 1340 1350
TFDPFSKLLC WADAGTKKLE CTLPDGTGRR VIQNHLNYPF SVVSYADHFY
1360 1370 1380 1390
HTDWRRDGVI SVSKDSGQLT DEYLPEQRSH LYGITAVYPY CPTGRK
Length:1,396
Mass (Da):152,976
Last modified:October 14, 2008 - v1
Checksum:iC0C9D1C6943240D7
GO
Isoform 2 (identifier: B5DFC9-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1220: Missing.

Note: No experimental confirmation available.
Show »
Length:176
Mass (Da):20,123
Checksum:iE9E820D47169E3D6
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 12201220Missing in isoform 2. 1 PublicationVSP_038781Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH474061 Genomic DNA. Translation: EDL86201.1.
BC088325 mRNA. Translation: AAH88325.1.
BC169012 mRNA. Translation: AAI69012.1.
RefSeqiNP_001012005.2. NM_001012005.2. [B5DFC9-1]
UniGeneiRn.98892.

Genome annotation databases

GeneIDi302248.
KEGGirno:302248.
UCSCiRGD:1311685. rat. [B5DFC9-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CH474061 Genomic DNA. Translation: EDL86201.1.
BC088325 mRNA. Translation: AAH88325.1.
BC169012 mRNA. Translation: AAI69012.1.
RefSeqiNP_001012005.2. NM_001012005.2. [B5DFC9-1]
UniGeneiRn.98892.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000000383.

PTM databases

iPTMnetiB5DFC9.
UniCarbKBiB5DFC9.

Proteomic databases

PaxDbiB5DFC9.
PRIDEiB5DFC9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi302248.
KEGGirno:302248.
UCSCiRGD:1311685. rat. [B5DFC9-1]

Organism-specific databases

CTDi22795.
RGDi1311685. Nid2.

Phylogenomic databases

eggNOGiENOG410IMYX. Eukaryota.
ENOG4111DVZ. LUCA.
HOGENOMiHOG000072712.
HOVERGENiHBG006498.
InParanoidiB5DFC9.
KOiK06826.
OrthoDBiEOG7M0NQN.
PhylomeDBiB5DFC9.
TreeFamiTF320666.

Miscellaneous databases

PROiB5DFC9.

Family and domain databases

Gene3Di2.120.10.30. 1 hit.
2.40.155.10. 2 hits.
4.10.800.10. 2 hits.
InterProiIPR011042. 6-blade_b-propeller_TolB-like.
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.
IPR006605. G2_nidogen/fibulin_G2F.
IPR009017. GFP.
IPR023413. GFP-like.
IPR009030. Growth_fac_rcpt_.
IPR000033. LDLR_classB_rpt.
IPR003886. NIDO_dom.
IPR000716. Thyroglobulin_1.
[Graphical view]
PfamiPF07645. EGF_CA. 2 hits.
PF07474. G2F. 1 hit.
PF00058. Ldl_recept_b. 2 hits.
PF06119. NIDO. 1 hit.
PF00086. Thyroglobulin_1. 2 hits.
[Graphical view]
SMARTiSM00181. EGF. 5 hits.
SM00179. EGF_CA. 4 hits.
SM00682. G2F. 1 hit.
SM00135. LY. 4 hits.
SM00539. NIDO. 1 hit.
SM00211. TY. 2 hits.
[Graphical view]
SUPFAMiSSF54511. SSF54511. 1 hit.
SSF57184. SSF57184. 2 hits.
SSF57610. SSF57610. 2 hits.
PROSITEiPS00010. ASX_HYDROXYL. 3 hits.
PS01186. EGF_2. 4 hits.
PS50026. EGF_3. 5 hits.
PS01187. EGF_CA. 2 hits.
PS51120. LDLRB. 4 hits.
PS51220. NIDO. 1 hit.
PS50993. NIDOGEN_G2. 1 hit.
PS00484. THYROGLOBULIN_1_1. 2 hits.
PS51162. THYROGLOBULIN_1_2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "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: Kidney and Spleen.

Entry informationi

Entry nameiNID2_RAT
AccessioniPrimary (citable) accession number: B5DFC9
Secondary accession number(s): Q5M812
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 2, 2010
Last sequence update: October 14, 2008
Last modified: June 8, 2016
This is version 68 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.