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Q13137 (CACO2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 110. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Calcium-binding and coiled-coil domain-containing protein 2
Alternative name(s):
Antigen nuclear dot 52 kDa protein
Nuclear domain 10 protein NDP52
Short name=Nuclear domain 10 protein 52
Nuclear dot protein 52
Gene names
Name:CALCOCO2
Synonyms:NDP52
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length446 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May play a role in ruffle formation and actin cytoskeleton organization. Seems to negatively regulate constitutive secretion. Ref.10

Subunit structure

Part of a complex consisting of CALCOCO2, TAX1BP1 and MYO6. Interacts with GEMIN4. Ref.9 Ref.10

Subcellular location

Cytoplasmperinuclear region. Golgi apparatus. Cytoplasmcytoskeleton. Note: According to Ref.1, localizes to nuclear dots. According to Ref.8 and Ref.9, it is not a nuclear dot-associated protein but localizes predominantly in the cytoplasm with a coarse-grained distribution preferentially close to the nucleus. Ref.1 Ref.8 Ref.9

Tissue specificity

Expressed in all tissues tested with highest expression in skeletal muscle and lowest in brain. Ref.1

Miscellaneous

According to Ref.1, HSV-1 infection removes CALCOCO2 from the nucleus, however, it remains faintly in areas shown to be domains, containing splicing components. Treatment with IFNB1/IFN-beta and IFNG/IFN-gamma show an increase in number and size of CALCOCO2-specific dots and partial redistribution to the cytoplasm. According to Ref.8, IFNG/IFN-gamma increases gene expression only slightly and IFNB does not increase expression.

Binary interactions

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q13137-1)

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.
Isoform 2 (identifier: Q13137-2)

The sequence of this isoform differs from the canonical sequence as follows:
     139-180: Missing.
Note: No experimental confirmation available.
Isoform 3 (identifier: Q13137-3)

The sequence of this isoform differs from the canonical sequence as follows:
     60-60: R → RCSLNQTIQLLITPDTGSIWHQ
Note: No experimental confirmation available.
Isoform 4 (identifier: Q13137-4)

The sequence of this isoform differs from the canonical sequence as follows:
     60-60: R → RAFKCFQDKLEQELLKWRSQGQKLQ
Note: No experimental confirmation available.
Isoform 5 (identifier: Q13137-5)

The sequence of this isoform differs from the canonical sequence as follows:
     1-72: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 446446Calcium-binding and coiled-coil domain-containing protein 2
PRO_0000312337

Regions

Region395 – 44652Interaction with MYO6
Coiled coil137 – 349213 Potential

Natural variations

Alternative sequence1 – 7272Missing in isoform 5.
VSP_047414
Alternative sequence601R → RCSLNQTIQLLITPDTGSIW HQ in isoform 3.
VSP_046766
Alternative sequence601R → RAFKCFQDKLEQELLKWRSQ GQKLQ in isoform 4.
VSP_046767
Alternative sequence139 – 18042Missing in isoform 2.
VSP_044728
Natural variant1401G → E. Ref.2
Corresponds to variant rs550510 [ dbSNP | Ensembl ].
VAR_037489
Natural variant2271G → R.
Corresponds to variant rs2303016 [ dbSNP | Ensembl ].
VAR_037490
Natural variant2481V → A. Ref.2 Ref.3
Corresponds to variant rs2303015 [ dbSNP | Ensembl ].
VAR_037491
Natural variant2731T → A. Ref.7
Corresponds to variant rs17849804 [ dbSNP | Ensembl ].
VAR_037492
Natural variant3891P → A. Ref.2 Ref.4 Ref.6
Corresponds to variant rs10278 [ dbSNP | Ensembl ].
VAR_037493

Experimental info

Mutagenesis4001C → A: Loss of interaction with MYO6. Ref.10
Mutagenesis4251C → A: No effect on interaction with MYO6. Ref.10
Sequence conflict1021D → Y in BAG64382. Ref.2
Sequence conflict3131R → G in BAG56685. Ref.2

Secondary structure

......................... 446
Helix Strand Turn

Details...

Sequences

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

Last modified November 1, 1996. Version 1.
Checksum: 609B121DA1A9DCB8

FASTA44652,254
        10         20         30         40         50         60 
MEETIKDPPT SAVLLDHCHF SQVIFNSVEK FYIPGGDVTC HYTFTQHFIP RRKDWIGIFR 

        70         80         90        100        110        120 
VGWKTTREYY TFMWVTLPID LNNKSAKQQE VQFKAYYLPK DDEYYQFCYV DEDGVVRGAS 

       130        140        150        160        170        180 
IPFQFRPENE EDILVVTTQG EVEEIEQHNK ELCKENQELK DSCISLQKQN SDMQAELQKK 

       190        200        210        220        230        240 
QEELETLQSI NKKLELKVKE QKDYWETELL QLKEQNQKMS SENEKMGIRV DQLQAQLSTQ 

       250        260        270        280        290        300 
EKEMEKLVQG DQDKTEQLEQ LKKENDHLFL SLTEQRKDQK KLEQTVEQMK QNETTAMKKQ 

       310        320        330        340        350        360 
QELMDENFDL SKRLSENEII CNALQRQKER LEGENDLLKR ENSRLLSYMG LDFNSLPYQV 

       370        380        390        400        410        420 
PTSDEGGARQ NPGLAYGNPY SGIQESSSPS PLSIKKCPIC KADDICDHTL EQQQMQPLCF 

       430        440 
NCPICDKIFP ATEKQIFEDH VFCHSL 

« Hide

Isoform 2 [UniParc].

Checksum: 096590EDA273DE3E
Show »

FASTA40447,340
Isoform 3 [UniParc].

Checksum: CF0B512C4C91DB91
Show »

FASTA46754,605
Isoform 4 [UniParc].

Checksum: DC114D09C4737FEC
Show »

FASTA47055,188
Isoform 5 [UniParc].

Checksum: F20EB9A4621F735A
Show »

FASTA37443,669

References

« Hide 'large scale' references
[1]"Molecular characterization of NDP52, a novel protein of the nuclear domain 10, which is redistributed upon virus infection and interferon treatment."
Korioth F., Gieffers C., Maul G.G., Frey J.
J. Cell Biol. 130:1-13(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[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] (ISOFORMS 1; 2; 3; 4 AND 5), VARIANTS GLU-140; ALA-248 AND ALA-389.
Tissue: Mammary gland, Neuroblastoma, Teratocarcinoma and Thymus.
[3]"Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT ALA-248.
[4]Suzuki Y., Sugano S., Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S.
Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT ALA-389.
Tissue: Brain and Gastric mucosa.
[5]"DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage."
Zody M.C., Garber M., Adams D.J., Sharpe T., Harrow J., Lupski J.R., Nicholson C., Searle S.M., Wilming L., Young S.K., Abouelleil A., Allen N.R., Bi W., Bloom T., Borowsky M.L., Bugalter B.E., Butler J., Chang J.L. expand/collapse author list , Chen C.-K., Cook A., Corum B., Cuomo C.A., de Jong P.J., DeCaprio D., Dewar K., FitzGerald M., Gilbert J., Gibson R., Gnerre S., Goldstein S., Grafham D.V., Grocock R., Hafez N., Hagopian D.S., Hart E., Norman C.H., Humphray S., Jaffe D.B., Jones M., Kamal M., Khodiyar V.K., LaButti K., Laird G., Lehoczky J., Liu X., Lokyitsang T., Loveland J., Lui A., Macdonald P., Major J.E., Matthews L., Mauceli E., McCarroll S.A., Mihalev A.H., Mudge J., Nguyen C., Nicol R., O'Leary S.B., Osoegawa K., Schwartz D.C., Shaw-Smith C., Stankiewicz P., Steward C., Swarbreck D., Venkataraman V., Whittaker C.A., Yang X., Zimmer A.R., Bradley A., Hubbard T., Birren B.W., Rogers J., Lander E.S., Nusbaum C.
Nature 440:1045-1049(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]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], VARIANT ALA-389.
[7]"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] (ISOFORM 1), VARIANT ALA-273.
Tissue: Kidney and Skin.
[8]"Cellular localization, expression, and structure of the nuclear dot protein 52."
Sternsdorf T., Jensen K., Zuchner D., Will H.
J. Cell Biol. 138:435-448(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION.
[9]"HCC-associated protein HCAP1, a variant of GEMIN4, interacts with zinc-finger proteins."
Di Y., Li J., Zhang Y., He X., Lu H., Xu D., Ling J., Huo K., Wan D., Li Y.Y., Gu J.
J. Biochem. 133:713-718(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH GEMIN4, SUBCELLULAR LOCATION.
[10]"T6BP and NDP52 are myosin VI binding partners with potential roles in cytokine signalling and cell adhesion."
Morriswood B., Ryzhakov G., Puri C., Arden S.D., Roberts R., Dendrou C., Kendrick-Jones J., Buss F.
J. Cell Sci. 120:2574-2585(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH TAX1BP1 AND MYO6, MUTAGENESIS OF CYS-400 AND CYS-425.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
U22897 mRNA. Translation: AAA75297.1.
AK293137 mRNA. Translation: BAG56685.1.
AK293329 mRNA. Translation: BAG56845.1.
AK298177 mRNA. Translation: BAG60448.1.
AK303313 mRNA. Translation: BAG64382.1.
AK314796 mRNA. Translation: BAG37327.1.
CR456763 mRNA. Translation: CAG33044.1.
AK222666 mRNA. Translation: BAD96386.1.
AK223227 mRNA. Translation: BAD96947.1.
AC068531 Genomic DNA. No translation available.
CH471109 Genomic DNA. Translation: EAW94707.1.
BC004130 mRNA. Translation: AAH04130.1.
BC015893 mRNA. Translation: AAH15893.1.
CCDSCCDS11538.1. [Q13137-1]
CCDS58558.1. [Q13137-3]
CCDS58559.1. [Q13137-4]
CCDS58560.1. [Q13137-2]
CCDS58561.1. [Q13137-5]
PIRA56733.
RefSeqNP_001248319.1. NM_001261390.1. [Q13137-4]
NP_001248320.1. NM_001261391.1. [Q13137-3]
NP_001248322.1. NM_001261393.1. [Q13137-2]
NP_001248324.1. NM_001261395.1. [Q13137-5]
NP_005822.1. NM_005831.4. [Q13137-1]
UniGeneHs.514920.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
3VVVX-ray1.35A21-141[»]
3VVWX-ray2.50A21-141[»]
4GXLX-ray2.02B368-381[»]
4HANX-ray2.55C/D372-385[»]
ProteinModelPortalQ13137.
SMRQ13137. Positions 21-132, 420-445.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid115535. 77 interactions.
DIPDIP-57534N.
IntActQ13137. 75 interactions.
MINTMINT-270155.
STRING9606.ENSP00000258947.

PTM databases

PhosphoSiteQ13137.

Polymorphism databases

DMDM74735623.

Proteomic databases

MaxQBQ13137.
PaxDbQ13137.
PRIDEQ13137.

Protocols and materials databases

DNASU10241.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000258947; ENSP00000258947; ENSG00000136436. [Q13137-1]
ENST00000416445; ENSP00000406974; ENSG00000136436. [Q13137-2]
ENST00000448105; ENSP00000398523; ENSG00000136436. [Q13137-4]
ENST00000508679; ENSP00000423437; ENSG00000136436. [Q13137-5]
ENST00000509507; ENSP00000424352; ENSG00000136436. [Q13137-3]
GeneID10241.
KEGGhsa:10241.
UCSCuc002iof.4. human. [Q13137-1]

Organism-specific databases

CTD10241.
GeneCardsGC17P046908.
H-InvDBHIX0013950.
HGNCHGNC:29912. CALCOCO2.
HPAHPA022989.
HPA023019.
HPA023195.
MIM604587. gene.
neXtProtNX_Q13137.
PharmGKBPA143485407.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG87904.
HOGENOMHOG000050230.
HOVERGENHBG104102.
InParanoidQ13137.
OMAYYTFMWV.
OrthoDBEOG7RRF8H.
PhylomeDBQ13137.
TreeFamTF329501.

Gene expression databases

ArrayExpressQ13137.
BgeeQ13137.
CleanExHS_CALCOCO2.
GenevestigatorQ13137.

Family and domain databases

InterProIPR012852. CoCoA.
[Graphical view]
PfamPF07888. CALCOCO1. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSCALCOCO2. human.
GeneWikiCALCOCO2.
GenomeRNAi10241.
NextBio38796.
PROQ13137.
SOURCESearch...

Entry information

Entry nameCACO2_HUMAN
AccessionPrimary (citable) accession number: Q13137
Secondary accession number(s): B2RBT0 expand/collapse secondary AC list , B4DDC4, B4DDT4, B4DP36, B4E0C0, E7ENK0, E7ETP5, E9PBE5, Q53FQ5, Q53HB5, Q6IBN9, Q9BTF7
Entry history
Integrated into UniProtKB/Swiss-Prot: December 4, 2007
Last sequence update: November 1, 1996
Last modified: July 9, 2014
This is version 110 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

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 polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 17

Human chromosome 17: entries, gene names and cross-references to MIM