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Protein

Neurochondrin

Gene

NCDN

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

Functioni

Probably involved in signal transduction, in the nervous system, via increasing cell surface localization of GRM5 and positively regulating its signaling (By similarity). Required for the spatial learning process. Acts as a negative regulator of Ca2+-calmodulin-dependent protein kinase 2 (CaMK2) phosphorylation. May play a role in modulating melanin-concentrating hormone-mediated functions via its interaction with MCHR1 that interferes with G protein-coupled signal transduction. May be involved in bone metabolism. May also be involved in neurite outgrowth.By similarity1 Publication

GO - Biological processi

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Neurochondrin
Gene namesi
Name:NCDN
Synonyms:KIAA0607
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:17597. NCDN.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: UniProtKB
  • dendrite Source: UniProtKB
  • membrane Source: UniProtKB
  • neuronal cell body Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell projection, Cytoplasm

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134963729.

Polymorphism and mutation databases

BioMutaiNCDN.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedCombined sources
Chaini2 – 729728NeurochondrinPRO_0000324617Add
BLAST
Isoform 2 (identifier: Q9UBB6-2)
Initiator methionineiRemovedCombined sources

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserineCombined sources
Modified residuei448 – 4481PhosphoserineBy similarity
Isoform 2 (identifier: Q9UBB6-2)
Modified residuei2 – 21N-acetylalanineCombined sources

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9UBB6.
MaxQBiQ9UBB6.
PaxDbiQ9UBB6.
PRIDEiQ9UBB6.

PTM databases

iPTMnetiQ9UBB6.
PhosphoSiteiQ9UBB6.

Expressioni

Tissue specificityi

Abundantly expressed in whole adult brain and in all individual brain regions examined, including spinal cord. Weakly expressed in ovary, testis, fetal brain and small intestine.2 Publications

Gene expression databases

BgeeiQ9UBB6.
CleanExiHS_NCDN.
ExpressionAtlasiQ9UBB6. baseline and differential.
GenevisibleiQ9UBB6. HS.

Organism-specific databases

HPAiHPA023676.

Interactioni

Subunit structurei

Interacts with SEMA4C, DIAPH1 (via FH3 domain) and GRM5 (By similarity). Interacts with MCHR1.By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
AESQ081173EBI-1053490,EBI-717810
EFHC2Q5JST63EBI-1053490,EBI-2349927
TINF2Q9BSI42EBI-1053490,EBI-717399

Protein-protein interaction databases

BioGridi116768. 22 interactions.
IntActiQ9UBB6. 9 interactions.
STRINGi9606.ENSP00000348394.

Structurei

3D structure databases

ProteinModelPortaliQ9UBB6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the neurochondrin family.Curated

Phylogenomic databases

eggNOGiKOG2611. Eukaryota.
ENOG410XRYT. LUCA.
GeneTreeiENSGT00390000013601.
HOGENOMiHOG000113742.
HOVERGENiHBG097452.
InParanoidiQ9UBB6.
OMAiATIRFLW.
OrthoDBiEOG72ZCDD.
PhylomeDBiQ9UBB6.
TreeFamiTF323752.

Family and domain databases

InterProiIPR016024. ARM-type_fold.
IPR008709. Neurochondrin.
[Graphical view]
PANTHERiPTHR13109. PTHR13109. 1 hit.
PfamiPF05536. Neurochondrin. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9UBB6-1) [UniParc]FASTAAdd to basket

Also known as: NCDN1, Neurochondrin-1

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
MSCCDLAAAG QLGKASIMAS DCEPALNQAE GRNPTLERYL GALREAKNDS
60 70 80 90 100
EQFAALLLVT KAVKAGDIDA KTRRRIFDAV GFTFPNRLLT TKEAPDGCPD
110 120 130 140 150
HVLRALGVAL LACFCSDPEL AAHPQVLNKI PILSTFLTAR GDPDDAARRS
160 170 180 190 200
MIDDTYQCLT AVAGTPRGPR HLIAGGTVSA LCQAYLGHGY GFDQALALLV
210 220 230 240 250
GLLAAAETQC WKEAEPDLLA VLRGLSEDFQ KAEDASKFEL CQLLPLFLPP
260 270 280 290 300
TTVPPECYRD LQAGLARILG SKLSSWQRNP ALKLAARLAH ACGSDWIPAG
310 320 330 340 350
SSGSKFLALL VNLACVEVRL ALEETGTEVK EDVVTACYAL MELGIQECTR
360 370 380 390 400
CEQSLLKEPQ KVQLVSVMKE AIGAVIHYLL QVGSEKQKEP FVFASVRILG
410 420 430 440 450
AWLAEETSSL RKEVCQLLPF LVRYAKTLYE EAEEANDLSQ QVANLAISPT
460 470 480 490 500
TPGPTWPGDA LRLLLPGWCH LTVEDGPREI LIKEGAPSLL CKYFLQQWEL
510 520 530 540 550
TSPGHDTSVL PDSVEIGLQT CCHIFLNLVV TAPGLIKRDA CFTSLMNTLM
560 570 580 590 600
TSLPALVQQQ GRLLLAANVA TLGLLMARLL STSPALQGTP ASRGFFAAAI
610 620 630 640 650
LFLSQSHVAR ATPGSDQAVL ALSPEYEGIW ADLQELWFLG MQAFTGCVPL
660 670 680 690 700
LPWLAPAALR SRWPQELLQL LGSVSPNSVK PEMVAAYQGV LVELARANRL
710 720
CREAMRLQAG EETASHYRMA ALEQCLSEP
Length:729
Mass (Da):78,864
Last modified:May 1, 2000 - v1
Checksum:iFA8D46B06CE1F5AB
GO
Isoform 2 (identifier: Q9UBB6-2) [UniParc]FASTAAdd to basket

Also known as: NCDN2, Neurochondrin-2

The sequence of this isoform differs from the canonical sequence as follows:
     1-17: Missing.

Show »
Length:712
Mass (Da):77,243
Checksum:i144A0EBF2B0FC907
GO
Isoform 3 (identifier: Q9UBB6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-11: MSCCDLAAAGQ → ALGEDFAARGRSL

Note: Incomplete sequence. No experimental confirmation available.
Show »
Length:731
Mass (Da):79,158
Checksum:i42524AD547E0966B
GO

Sequence cautioni

The sequence AAD05029.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti392 – 3921V → E in a colorectal cancer sample; somatic mutation. 1 Publication
VAR_039849
Natural varianti392 – 3921V → L in a colorectal cancer sample; somatic mutation. 1 Publication
VAR_039850

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 1717Missing in isoform 2. CuratedVSP_032315Add
BLAST
Alternative sequencei1 – 1111MSCCDLAAAGQ → ALGEDFAARGRSL in isoform 3. CuratedVSP_032316Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB018739 mRNA. Translation: BAA85384.2.
AB018740 mRNA. Translation: BAA85385.2.
AB027514 Genomic DNA. Translation: BAA77830.1.
AB027514 Genomic DNA. Translation: BAA77831.1.
AC004865 Genomic DNA. Translation: AAD05029.1. Sequence problems.
CH471059 Genomic DNA. Translation: EAX07410.1.
CH471059 Genomic DNA. Translation: EAX07411.1.
CH471059 Genomic DNA. Translation: EAX07412.1.
BC024592 mRNA. Translation: AAH24592.1.
AB011179 mRNA. Translation: BAA25533.1.
CCDSiCCDS30672.1. [Q9UBB6-2]
CCDS392.1. [Q9UBB6-1]
RefSeqiNP_001014839.1. NM_001014839.1. [Q9UBB6-1]
NP_001014841.1. NM_001014841.1. [Q9UBB6-2]
NP_055099.1. NM_014284.2. [Q9UBB6-1]
UniGeneiHs.121870.

Genome annotation databases

EnsembliENST00000356090; ENSP00000348394; ENSG00000020129. [Q9UBB6-1]
ENST00000373243; ENSP00000362340; ENSG00000020129. [Q9UBB6-1]
ENST00000373253; ENSP00000362350; ENSG00000020129. [Q9UBB6-2]
GeneIDi23154.
KEGGihsa:23154.
UCSCiuc001bza.3. human. [Q9UBB6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB018739 mRNA. Translation: BAA85384.2.
AB018740 mRNA. Translation: BAA85385.2.
AB027514 Genomic DNA. Translation: BAA77830.1.
AB027514 Genomic DNA. Translation: BAA77831.1.
AC004865 Genomic DNA. Translation: AAD05029.1. Sequence problems.
CH471059 Genomic DNA. Translation: EAX07410.1.
CH471059 Genomic DNA. Translation: EAX07411.1.
CH471059 Genomic DNA. Translation: EAX07412.1.
BC024592 mRNA. Translation: AAH24592.1.
AB011179 mRNA. Translation: BAA25533.1.
CCDSiCCDS30672.1. [Q9UBB6-2]
CCDS392.1. [Q9UBB6-1]
RefSeqiNP_001014839.1. NM_001014839.1. [Q9UBB6-1]
NP_001014841.1. NM_001014841.1. [Q9UBB6-2]
NP_055099.1. NM_014284.2. [Q9UBB6-1]
UniGeneiHs.121870.

3D structure databases

ProteinModelPortaliQ9UBB6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116768. 22 interactions.
IntActiQ9UBB6. 9 interactions.
STRINGi9606.ENSP00000348394.

PTM databases

iPTMnetiQ9UBB6.
PhosphoSiteiQ9UBB6.

Polymorphism and mutation databases

BioMutaiNCDN.

Proteomic databases

EPDiQ9UBB6.
MaxQBiQ9UBB6.
PaxDbiQ9UBB6.
PRIDEiQ9UBB6.

Protocols and materials databases

DNASUi23154.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000356090; ENSP00000348394; ENSG00000020129. [Q9UBB6-1]
ENST00000373243; ENSP00000362340; ENSG00000020129. [Q9UBB6-1]
ENST00000373253; ENSP00000362350; ENSG00000020129. [Q9UBB6-2]
GeneIDi23154.
KEGGihsa:23154.
UCSCiuc001bza.3. human. [Q9UBB6-1]

Organism-specific databases

CTDi23154.
GeneCardsiNCDN.
HGNCiHGNC:17597. NCDN.
HPAiHPA023676.
MIMi608458. gene.
neXtProtiNX_Q9UBB6.
PharmGKBiPA134963729.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2611. Eukaryota.
ENOG410XRYT. LUCA.
GeneTreeiENSGT00390000013601.
HOGENOMiHOG000113742.
HOVERGENiHBG097452.
InParanoidiQ9UBB6.
OMAiATIRFLW.
OrthoDBiEOG72ZCDD.
PhylomeDBiQ9UBB6.
TreeFamiTF323752.

Miscellaneous databases

ChiTaRSiNCDN. human.
GeneWikiiNCDN.
GenomeRNAii23154.
PROiQ9UBB6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9UBB6.
CleanExiHS_NCDN.
ExpressionAtlasiQ9UBB6. baseline and differential.
GenevisibleiQ9UBB6. HS.

Family and domain databases

InterProiIPR016024. ARM-type_fold.
IPR008709. Neurochondrin.
[Graphical view]
PANTHERiPTHR13109. PTHR13109. 1 hit.
PfamiPF05536. Neurochondrin. 1 hit.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular cloning and expression of human neurochondrin-1 and -2."
    Mochizuki R., Ishizuka Y., Yanai K., Murakami K., Koga Y., Fukamizu A.
    Biochim. Biophys. Acta 1446:397-402(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], TISSUE SPECIFICITY.
    Tissue: Brain.
  2. Erratum
    Mochizuki R., Ishizuka Y., Yanai K., Murakami K., Koga Y., Fukamizu A.
    Biochim. Biophys. Acta 1490:367-368(2000) [PubMed] [Europe PMC] [Abstract]
  3. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "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].
    Tissue: Uterus.
  6. "Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro."
    Nagase T., Ishikawa K., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
    DNA Res. 5:31-39(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: PARTIAL NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3), TISSUE SPECIFICITY.
    Tissue: Brain.
  7. "Interaction of neurochondrin with the melanin-concentrating hormone receptor 1 interferes with G protein-coupled signal transduction but not agonist-mediated internalization."
    Francke F., Ward R.J., Jenkins L., Kellett E., Richter D., Milligan G., Baechner D.
    J. Biol. Chem. 281:32496-32507(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH MCHR1.
  8. "Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach."
    Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S.
    Anal. Chem. 81:4493-4501(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS], IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-2, ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2 (ISOFORM 2), CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS] (ISOFORM 2), IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  11. Cited for: VARIANTS [LARGE SCALE ANALYSIS] GLU-392 AND LEU-392.

Entry informationi

Entry nameiNCDN_HUMAN
AccessioniPrimary (citable) accession number: Q9UBB6
Secondary accession number(s): D3DPR9
, Q9UBY2, Q9Y4A6, Q9Y4D9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 18, 2008
Last sequence update: May 1, 2000
Last modified: June 8, 2016
This is version 110 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: 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. 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.