Q13137 (CACO2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended 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

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	446 AA.
Sequence status	Complete.
Protein existence	Evidence 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	Cytoplasm › perinuclear region. Golgi apparatus. Cytoplasm › cytoskeleton. 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.

Ontologies

Keywords
Cellular component	Cytoplasm Cytoskeleton Golgi apparatus
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Coiled coil
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	response to interferon-gamma Inferred from direct assay Ref.8. Source: BHF-UCL viral reproduction Traceable author statement Ref.1. Source: ProtInc
Cellular_component	Golgi apparatus Inferred from electronic annotation. Source: UniProtKB-SubCell cytoskeleton Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Inferred from direct assay. Source: HPA perinuclear region of cytoplasm Inferred from direct assay Ref.8. Source: BHF-UCL
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
MAVS	Q7Z434	3	EBI-739580,EBI-995373
MTPAP	Q9NVV4	2	EBI-739580,EBI-2556166
TBK1	Q9UHD2	5	EBI-739580,EBI-356402

Alternative products

This entry describes 2 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.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 446	446	Calcium-binding and coiled-coil domain-containing protein 2		PRO_0000312337
Regions
	Region	395 – 446	52	Interaction with MYO6
	Coiled coil	137 – 349	213	Potential
Natural variations
	Alternative sequence	139 – 180	42	Missing in isoform 2.		VSP_044728
	Natural variant	140	1	G → E. Corresponds to variant rs550510 [ dbSNP | Ensembl ].		VAR_037489
	Natural variant	227	1	G → R. Corresponds to variant rs2303016 [ dbSNP | Ensembl ].		VAR_037490
	Natural variant	248	1	V → A. Ref.2 Ref.3 Corresponds to variant rs2303015 [ dbSNP | Ensembl ].		VAR_037491
	Natural variant	273	1	T → A. Ref.7 Corresponds to variant rs17849804 [ dbSNP | Ensembl ].		VAR_037492
	Natural variant	389	1	P → A. Ref.4 Ref.6 Corresponds to variant rs10278 [ dbSNP | Ensembl ].		VAR_037493
Experimental info
	Mutagenesis	400	1	C → A: Loss of interaction with MYO6. Ref.10
	Mutagenesis	425	1	C → A: No effect on interaction with MYO6. Ref.10
	Sequence conflict	102	1	D → Y in BAG64382. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 609B121DA1A9DCB8	FASTA	446	52,254
	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
	Isoform 2 [UniParc]. Checksum: 096590EDA273DE3E	FASTA	404	47,340
	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 EDILVVTTQE ELETLQSINK KLELKVKEQK DYWETELLQL KEQNQKMSSE 190 200 210 220 230 240 NEKMGIRVDQ LQAQLSTQEK EMEKLVQGDQ DKTEQLEQLK KENDHLFLSL TEQRKDQKKL 250 260 270 280 290 300 EQTVEQMKQN ETTAMKKQQE LMDENFDLSK RLSENEIICN ALQRQKERLE GENDLLKREN 310 320 330 340 350 360 SRLLSYMGLD FNSLPYQVPT SDEGGARQNP GLAYGNPYSG IQESSSPSPL SIKKCPICKA 370 380 390 400 DDICDHTLEQ QQMQPLCFNC PICDKIFPAT EKQIFEDHVF CHSL

References

	« Hide 'large scale' referencesShow '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. , 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 AND 2), VARIANT ALA-248. Tissue: 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. , 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. , 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.
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.

IPI

IPI00908968.
IPI00965684.

PIR

A56733.

RefSeq

NP_001248322.1. NM_001261393.1.
NP_005822.1. NM_005831.4.

UniGene

Hs.514920.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3VVV	X-ray	1.35	A	21-141	[»]
3VVW	X-ray	2.50	A	21-141	[»]

ProteinModelPortal

Q13137.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-57534N.

IntAct

Q13137. 64 interactions.

MINT

MINT-270155.

STRING

9606.ENSP00000258947.

PTM databases

PhosphoSite

Q13137.

Polymorphism databases

DMDM

74735623.

Proteomic databases

PaxDb

Q13137.

PRIDE

Q13137.

Protocols and materials databases

DNASU

10241.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000258947; ENSP00000258947; ENSG00000136436.
ENST00000416445; ENSP00000406974; ENSG00000136436.

GeneID

10241.

KEGG

hsa:10241.

UCSC

uc002iof.3. human.

Organism-specific databases

CTD

10241.

GeneCards

GC17P046908.

H-InvDB

HIX0013950.

HGNC

HGNC:29912. CALCOCO2.

HPA

HPA022989.
HPA023019.
HPA023195.

MIM

604587. gene.

neXtProt

NX_Q13137.

PharmGKB

PA143485407.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG87904.

HOGENOM

HOG000050230.

HOVERGEN

HBG104102.

InParanoid

Q13137.

PhylomeDB

Q13137.

Gene expression databases

ArrayExpress

Q13137.

Bgee

Q13137.

CleanEx

HS_CALCOCO2.

Genevestigator

Q13137.

Family and domain databases

InterPro

IPR012852. CoCoA.
[Graphical view]

Pfam

PF07888. CALCOCO1. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChiTaRS

CALCOCO2. human.

GenomeRNAi

10241.

NextBio

38796.

SOURCE

Search...

Entry information

Entry name

CACO2_HUMAN

Accession

Primary (citable) accession number: Q13137
Secondary accession number(s): B2RBT0 , B4E0C0, E7ETP5, Q53FQ5, Q53HB5, Q6IBN9, Q9BTF7

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 4, 2007
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 96 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.