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Protein

Zinc finger CCHC domain-containing protein 8

Gene

ZCCHC8

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

Functioni

May be involved in pre-mRNA splicing.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri227 – 24418CCHC-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. poly(A) RNA binding Source: UniProtKB
  2. zinc ion binding Source: InterPro

GO - Biological processi

  1. mRNA splicing, via spliceosome Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger CCHC domain-containing protein 8
Alternative name(s):
TRAMP-like complex RNA-binding factor ZCCHC8
Gene namesi
Name:ZCCHC8
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 12

Organism-specific databases

HGNCiHGNC:25265. ZCCHC8.

Subcellular locationi

Nucleusnucleoplasm 1 Publication
Note: Excluded from nucleolus.

GO - Cellular componenti

  1. catalytic step 2 spliceosome Source: UniProtKB
  2. nucleoplasm Source: HPA
  3. nucleus Source: HPA
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134889410.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 707706Zinc finger CCHC domain-containing protein 8PRO_0000150960Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanine1 Publication
Modified residuei479 – 4791Phosphothreonine1 Publication
Modified residuei485 – 4851Phosphothreonine1 Publication
Modified residuei598 – 5981Phosphoserine1 Publication
Modified residuei658 – 6581Phosphoserine3 Publications

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ6NZY4.
PaxDbiQ6NZY4.
PRIDEiQ6NZY4.

PTM databases

PhosphoSiteiQ6NZY4.

Miscellaneous databases

PMAP-CutDBQ6NZY4.

Expressioni

Gene expression databases

BgeeiQ6NZY4.
CleanExiHS_ZCCHC8.
ExpressionAtlasiQ6NZY4. baseline and differential.
GenevestigatoriQ6NZY4.

Organism-specific databases

HPAiHPA037483.
HPA037484.

Interactioni

Subunit structurei

Component of a nuclear TRAMP-like complex, an ATP-dependent exosome regulatory complex consisting of an helicase (SKIV2L2/MTR4), an oligadenylate polymerase (PAPD5 or PAPD7), and a substrate specific RNA-binding factor (ZCCHC7 or ZCCHC8). Several TRAMP-like complexes exist with specific compositions and are associated with nuclear, or nucleolar RNA exosomes. Identified in the spliceosome C complex.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
BRCA1P383982EBI-1263058,EBI-349905

Protein-protein interaction databases

BioGridi120739. 43 interactions.
IntActiQ6NZY4. 8 interactions.
MINTiMINT-1187494.
STRINGi9606.ENSP00000337313.

Structurei

3D structure databases

ProteinModelPortaliQ6NZY4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili45 – 8036Sequence AnalysisAdd
BLAST
Coiled coili516 – 53924Sequence AnalysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi466 – 50136Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the ZCCHC8 family.Curated
Contains 1 CCHC-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri227 – 24418CCHC-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiNOG242619.
GeneTreeiENSGT00390000011475.
HOGENOMiHOG000155769.
HOVERGENiHBG079371.
InParanoidiQ6NZY4.
KOiK13128.
OMAiCEETIEQ.
OrthoDBiEOG7RNK09.
PhylomeDBiQ6NZY4.
TreeFamiTF321837.

Family and domain databases

Gene3Di4.10.60.10. 1 hit.
InterProiIPR006568. PSP.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF04046. PSP. 1 hit.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00581. PSP. 1 hit.
SM00343. ZnF_C2HC. 1 hit.
[Graphical view]
PROSITEiPS50158. ZF_CCHC. 1 hit.
[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. Align

Isoform 1 (identifier: Q6NZY4-1) [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
MAAEVYFGDL ELFEPFDHPE ESIPKPVHTR FKDDDGDEED ENGVGDAELR
60 70 80 90 100
ERLRQCEETI EQLRAENQEL KRKLNILTRP SGILVNDTKL DGPILQILFM
110 120 130 140 150
NNAISKQYHQ EIEEFVSNLV KRFEEQQKND VEKTSFNLLP QPSSIVLEED
160 170 180 190 200
HKVEESCAIK NNKEAFSVVG SVLYFTNFCL DKLGQPLLNE NPQLSEGWEI
210 220 230 240 250
PKYHQVFSHI VSLEGQEIQV KAKRPKPHCF NCGSEEHQMK DCPMPRNAAR
260 270 280 290 300
ISEKRKEYMD ACGEANNQNF QQRYHAEEVE ERFGRFKPGV ISEELQDALG
310 320 330 340 350
VTDKSLPPFI YRMRQLGYPP GWLKEAELEN SGLALYDGKD GTDGETEVGE
360 370 380 390 400
IQQNKSVTYD LSKLVNYPGF NISTPRGIPD EWRIFGSIPM QACQQKDVFA
410 420 430 440 450
NYLTSNFQAP GVKSGNKRSS SHSSPGSPKK QKNESNSAGS PADMELDSDM
460 470 480 490 500
EVPHGSQSSE SFQFQPPLPP DTPPLPRGTP PPVFTPPLPK GTPPLTPSDS
510 520 530 540 550
PQTRTASGAV DEDALTLEEL EEQQRRIWAA LEQAESVNSD SDVPVDTPLT
560 570 580 590 600
GNSVASSPCP NELDLPVPEG KTSEKQTLDE PEVPEIFTKK SEAGHASSPD
610 620 630 640 650
SEVTSLCQKE KAELAPVNTE GALLDNGSVV PNCDISNGGS QKLFPADTSP
660 670 680 690 700
STATKIHSPI PDMSKFATGI TPFEFENMAE STGMYLRIRS LLKNSPRNQQ

KNKKASE
Length:707
Mass (Da):78,577
Last modified:May 10, 2005 - v2
Checksum:i7BE6E30F919A4771
GO
Isoform 2 (identifier: Q6NZY4-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-238: Missing.

Note: No experimental confirmation available.

Show »
Length:469
Mass (Da):51,130
Checksum:i891FCBBB70026D4C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti20 – 201E → G in BAB55308. (PubMed:14702039)Curated
Sequence conflicti216 – 2194QEIQ → DAWV in AAH17704. (PubMed:15489334)Curated
Sequence conflicti326 – 3261A → V in AAH65918. (PubMed:15489334)Curated
Sequence conflicti461 – 4611S → G in BAB55308. (PubMed:14702039)Curated
Sequence conflicti582 – 5821E → G in BAC11105. (PubMed:14702039)Curated
Sequence conflicti663 – 6631M → V in CAB75658. (PubMed:17974005)Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti672 – 6721P → A.
Corresponds to variant rs1063155 [ dbSNP | Ensembl ].
VAR_034585

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 238238Missing in isoform 2. 1 PublicationVSP_013717Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK027702 mRNA. Translation: BAB55308.1.
AK074638 mRNA. Translation: BAC11105.1.
AL157433 mRNA. Translation: CAB75657.1.
AL157434 mRNA. Translation: CAB75658.1.
BC017704 mRNA. Translation: AAH17704.2.
BC065918 mRNA. Translation: AAH65918.1.
PIRiT46929.
T46930.
RefSeqiNP_060082.2. NM_017612.4. [Q6NZY4-1]
XP_005253638.1. XM_005253581.1. [Q6NZY4-2]
XP_006719555.1. XM_006719492.1. [Q6NZY4-2]
UniGeneiHs.37706.

Genome annotation databases

EnsembliENST00000536306; ENSP00000441423; ENSG00000033030. [Q6NZY4-2]
ENST00000543897; ENSP00000438993; ENSG00000033030. [Q6NZY4-2]
GeneIDi55596.
KEGGihsa:55596.
UCSCiuc001ucm.3. human. [Q6NZY4-1]

Polymorphism databases

DMDMi66774213.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK027702 mRNA. Translation: BAB55308.1.
AK074638 mRNA. Translation: BAC11105.1.
AL157433 mRNA. Translation: CAB75657.1.
AL157434 mRNA. Translation: CAB75658.1.
BC017704 mRNA. Translation: AAH17704.2.
BC065918 mRNA. Translation: AAH65918.1.
PIRiT46929.
T46930.
RefSeqiNP_060082.2. NM_017612.4. [Q6NZY4-1]
XP_005253638.1. XM_005253581.1. [Q6NZY4-2]
XP_006719555.1. XM_006719492.1. [Q6NZY4-2]
UniGeneiHs.37706.

3D structure databases

ProteinModelPortaliQ6NZY4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120739. 43 interactions.
IntActiQ6NZY4. 8 interactions.
MINTiMINT-1187494.
STRINGi9606.ENSP00000337313.

PTM databases

PhosphoSiteiQ6NZY4.

Polymorphism databases

DMDMi66774213.

Proteomic databases

MaxQBiQ6NZY4.
PaxDbiQ6NZY4.
PRIDEiQ6NZY4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000536306; ENSP00000441423; ENSG00000033030. [Q6NZY4-2]
ENST00000543897; ENSP00000438993; ENSG00000033030. [Q6NZY4-2]
GeneIDi55596.
KEGGihsa:55596.
UCSCiuc001ucm.3. human. [Q6NZY4-1]

Organism-specific databases

CTDi55596.
GeneCardsiGC12M122958.
H-InvDBHIX0011095.
HGNCiHGNC:25265. ZCCHC8.
HPAiHPA037483.
HPA037484.
neXtProtiNX_Q6NZY4.
PharmGKBiPA134889410.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG242619.
GeneTreeiENSGT00390000011475.
HOGENOMiHOG000155769.
HOVERGENiHBG079371.
InParanoidiQ6NZY4.
KOiK13128.
OMAiCEETIEQ.
OrthoDBiEOG7RNK09.
PhylomeDBiQ6NZY4.
TreeFamiTF321837.

Miscellaneous databases

ChiTaRSiZCCHC8. human.
GeneWikiiZCCHC8.
GenomeRNAii55596.
NextBioi60130.
PMAP-CutDBQ6NZY4.
PROiQ6NZY4.

Gene expression databases

BgeeiQ6NZY4.
CleanExiHS_ZCCHC8.
ExpressionAtlasiQ6NZY4. baseline and differential.
GenevestigatoriQ6NZY4.

Family and domain databases

Gene3Di4.10.60.10. 1 hit.
InterProiIPR006568. PSP.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF04046. PSP. 1 hit.
PF00098. zf-CCHC. 1 hit.
[Graphical view]
SMARTiSM00581. PSP. 1 hit.
SM00343. ZnF_C2HC. 1 hit.
[Graphical view]
PROSITEiPS50158. ZF_CCHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "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] (ISOFORM 1).
    Tissue: Embryo.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Testis.
  3. "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).
    Tissue: Brain and Duodenum.
  4. "Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis."
    Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J.
    RNA 8:426-439(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic kidney.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-598 AND SER-658, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  7. "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 ALA-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
  8. "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
    Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
    Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-658, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Leukemic T-cell.
  9. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-479; THR-485 AND SER-658, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  11. Cited for: IDENTIFICATION IN A TRAMP-LIKE COMPLEX, SUBUNIT, SUBCELLULAR LOCATION.
  12. "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
    Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
    Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  13. "Comparison of the yeast and human nuclear exosome complexes."
    Sloan K.E., Schneider C., Watkins N.J.
    Biochem. Soc. Trans. 40:850-855(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW ON RNA EXOSOMES.

Entry informationi

Entry nameiZCHC8_HUMAN
AccessioniPrimary (citable) accession number: Q6NZY4
Secondary accession number(s): Q7L2P6
, Q8N2K5, Q96SK7, Q9NSS2, Q9NSS3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 10, 2005
Last sequence update: May 10, 2005
Last modified: February 4, 2015
This is version 111 of the entry and version 2 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 12
    Human chromosome 12: 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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.