Q9NP64 (NO40_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Nucleolar protein of 40 kDa
Short name=pNO40

Alternative name(s):
Pnn-interacting nucleolar protein
Putative S1 RNA-binding domain protein
Short name=PS1D protein
Zinc finger CCHC domain-containing protein 17

Gene names

Name:	ZCCHC17
Synonyms:	PS1D
ORF Names:	HSPC243, HSPC251, LDC4

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	241 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Subunit structure	Interacts with PNN. Associates with the 60S ribosomal subunit By similarity. Ref.1
Subcellular location	Nucleus › nucleolus Ref.1.
Sequence similarities	Contains 1 CCHC-type zinc finger. Contains 1 S1 motif domain.
Sequence caution	The sequence AAF36171.1 differs from that shown. Reason: Frameshift at position 48.

Ontologies

Keywords
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Zinc-finger
Ligand	Metal-binding Zinc
Molecular function	Ribonucleoprotein
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	cytosolic large ribosomal subunit Inferred from electronic annotation. Source: Compara nucleolus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	RNA binding Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9NP64-1)

Also known as: hpNO40;

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: Q9NP64-2)

Also known as: hpNO40s;

The sequence of this isoform differs from the canonical sequence as follows:
     1-24: Missing.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 241

241

Nucleolar protein of 40 kDa

PRO_0000096902

Regions

Domain

16 – 88

73

S1 motif

Zinc finger

131 – 148

18

CCHC-type

Compositional bias

110 – 113

4

Poly-Arg

Compositional bias

161 – 167

7

Poly-Glu

Compositional bias

185 – 240

56

Lys-rich

Amino acid modifications

Modified residue

114

1

Phosphoserine Ref.7 Ref.8 Ref.9

Natural variations

Alternative sequence

1 – 24

24

Missing in isoform 2.

VSP_015308

Experimental info

Sequence conflict

217

1

R → G in AAF36171. Ref.2

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

241

Helix Strand Turn

Details...

Beta strand

18 – 27

10

Beta strand

30 – 34

5

Beta strand

42 – 45

4

Helix

46 – 49

4

Helix

57 – 60

4

Beta strand

66 – 76

11

Beta strand

81 – 87

7

Beta strand

92 – 94

3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (hpNO40) [UniParc]. Last modified October 1, 2000. Version 1. Checksum: DA1B039DAC5F4A1D	FASTA	241	27,570
	10 20 30 40 50 60 MNSGRPETME NLPALYTIFQ GEVAMVTDYG AFIKIPGCRK QGLVHRTHMS SCRVDKPSEI 70 80 90 100 110 120 VDVGDKVWVK LIGREMKNDR IKVSLSMKVV NQGTGKDLDP NNVIIEQEER RRRSFQDYTG 130 140 150 160 170 180 QKITLEAVLN TTCKKCGCKG HFAKDCFMQP GGTKYSLIPD EEEEKEEAKS AEFEKPDPTR 190 200 210 220 230 240 NPSRKRKKEK KKKKHRDRKS SDSDSSDSES DTGKRARHTS KDSKAAKKKK KKKKHKKKHK E
	Isoform 2 (hpNO40s) [UniParc]. Checksum: 9082B1330EE4DAAF	FASTA	217	24,919
	10 20 30 40 50 60 MVTDYGAFIK IPGCRKQGLV HRTHMSSCRV DKPSEIVDVG DKVWVKLIGR EMKNDRIKVS 70 80 90 100 110 120 LSMKVVNQGT GKDLDPNNVI IEQEERRRRS FQDYTGQKIT LEAVLNTTCK KCGCKGHFAK 130 140 150 160 170 180 DCFMQPGGTK YSLIPDEEEE KEEAKSAEFE KPDPTRNPSR KRKKEKKKKK HRDRKSSDSD 190 200 210 SSDSESDTGK RARHTSKDSK AAKKKKKKKK HKKKHKE

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular characterization of a novel nucleolar protein, pNO40." Chang W.-L., Lee D.-C., Leu S., Huang Y.-M., Lu M.-C., Ouyang P. Biochem. Biophys. Res. Commun. 307:569-577(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), ALTERNATIVE SPLICING, SUBCELLULAR LOCATION, INTERACTION WITH PNN. Tissue: Kidney.
[2]	"Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells." Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X. , Gu J., Chen S.-J., Chen Z. Genome Res. 10:1546-1560(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Umbilical cord blood.
[3]	"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: Placenta, Retinoblastoma and Teratocarcinoma.
[4]	"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].
[5]	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 (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	"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: Kidney, Muscle and Uterus.
[7]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-114, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[8]	"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 SER-114, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[9]	"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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-114, MASS SPECTROMETRY.
[10]	"Solution structure of the S1 RNA binding domain of human hypothetical protein FLJ11067." RIKEN structural genomics initiative (RSGI) Submitted (NOV-2005) to the PDB data bank Cited for: STRUCTURE BY NMR OF 1-106.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF247661 mRNA. Translation: AAF72518.3.
AF151077 mRNA. Translation: AAF36163.1.
AF151085 mRNA. Translation: AAF36171.1. Frameshift.
AK001929 mRNA. Translation: BAA91984.1.
AK022506 mRNA. Translation: BAB14066.1.
AK024049 mRNA. Translation: BAB14799.1.
AL451070 Genomic DNA. Translation: CAH71849.1.
CH471059 Genomic DNA. Translation: EAX07621.1.
CH471059 Genomic DNA. Translation: EAX07624.1.
BC000685 mRNA. Translation: AAH00685.1.
BC007446 mRNA. Translation: AAH07446.1.
BC050609 mRNA. Translation: AAH50609.1.

IPI

IPI00099810.
IPI00383254.

RefSeq

NP_057589.2. NM_016505.2.

UniGene

Hs.524094.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2CQO	NMR	-	A	1-106	[»]

ProteinModelPortal

Q9NP64.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q9NP64. 3 interactions.

MINT

MINT-1447770.

STRING

9606.ENSP00000343557.

PTM databases

PhosphoSite

Q9NP64.

Polymorphism databases

DMDM

73921227.

Proteomic databases

PaxDb

Q9NP64.

PRIDE

Q9NP64.

Protocols and materials databases

DNASU

51538.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000344147; ENSP00000343557; ENSG00000121766.
ENST00000373714; ENSP00000362819; ENSG00000121766.

GeneID

51538.

KEGG

hsa:51538.

UCSC

uc001bsp.1. human.

Organism-specific databases

CTD

51538.

GeneCards

GC01P031769.

HGNC

HGNC:30246. ZCCHC17.

HPA

HPA028280.

neXtProt

NX_Q9NP64.

PharmGKB

PA142670539.

GenAtlas

Search...

Phylogenomic databases

eggNOG

COG1185.

HOGENOM

HOG000113809.

HOVERGEN

HBG080343.

InParanoid

Q9NP64.

OrthoDB

EOG4Z62PQ.

PhylomeDB

Q9NP64.

Gene expression databases

ArrayExpress

Q9NP64.

Bgee

Q9NP64.

CleanEx

HS_ZCCHC17.

Genevestigator

Q9NP64.

GermOnline

ENSG00000121766. Homo sapiens.

Family and domain databases

Gene3D

2.40.50.140. 1 hit.

InterPro

IPR012340. NA-bd_OB-fold.
IPR003029. Rbsml_prot_S1_RNA-bd_dom.
IPR022967. RNA-binding_domain_S1.
IPR001878. Znf_CCHC.
[Graphical view]

Pfam

PF00575. S1. 1 hit.
[Graphical view]

SMART

SM00316. S1. 1 hit.
SM00343. ZnF_C2HC. 1 hit.
[Graphical view]

SUPFAM

SSF50249. Nucleic_acid_OB. 1 hit.

PROSITE

PS50126. S1. 1 hit.
PS50158. ZF_CCHC. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChiTaRS

ZCCHC17. human.

EvolutionaryTrace

Q9NP64.

GenomeRNAi

51538.

NextBio

55305.

Entry information

Entry name

NO40_HUMAN

Accession

Primary (citable) accession number: Q9NP64
Secondary accession number(s): D3DPN4 , Q6PKH4, Q9NYG4, Q9P0M8

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 30, 2005
Last sequence update:	October 1, 2000
Last modified:	May 1, 2013
This is version 105 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.