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Protein

Cell growth-regulating nucleolar protein

Gene

LYAR

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi6 – 61Zinc 1By similarity
Metal bindingi9 – 91Zinc 1By similarity
Metal bindingi21 – 211Zinc 1By similarity
Metal bindingi25 – 251Zinc 1By similarity
Metal bindingi33 – 331Zinc 2By similarity
Metal bindingi36 – 361Zinc 2By similarity
Metal bindingi48 – 481Zinc 2By similarity
Metal bindingi51 – 511Zinc 2By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri6 – 2520C2HC-type 1Add
BLAST
Zinc fingeri33 – 5119C2HC-type 2Add
BLAST

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • poly(A) RNA binding Source: UniProtKB
Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Cell growth-regulating nucleolar protein
Gene namesi
Name:LYAR
ORF Names:PNAS-5
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:26021. LYAR.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: LIFEdb
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162394697.

Polymorphism and mutation databases

BioMutaiLYAR.
DMDMi71153817.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 379379Cell growth-regulating nucleolar proteinPRO_0000084528Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei215 – 2151Phosphoserine1 Publication
Modified residuei244 – 2441Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ9NX58.
PaxDbiQ9NX58.
PeptideAtlasiQ9NX58.
PRIDEiQ9NX58.

2D gel databases

SWISS-2DPAGEQ9NX58.

PTM databases

PhosphoSiteiQ9NX58.

Expressioni

Gene expression databases

BgeeiQ9NX58.
CleanExiHS_LYAR.
ExpressionAtlasiQ9NX58. baseline and differential.
GenevisibleiQ9NX58. HS.

Organism-specific databases

HPAiHPA035881.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
BEND7Q8N7W2-23EBI-713507,EBI-10181188
PRKRAO755694EBI-713507,EBI-713955
SDCBP2Q9H1903EBI-713507,EBI-742426

Protein-protein interaction databases

BioGridi120780. 53 interactions.
IntActiQ9NX58. 21 interactions.
MINTiMINT-1391739.
STRINGi9606.ENSP00000345917.

Structurei

3D structure databases

ProteinModelPortaliQ9NX58.
SMRiQ9NX58. Positions 1-67.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili175 – 21945Sequence AnalysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi168 – 379212Lys-richAdd
BLAST

Sequence similaritiesi

Contains 2 C2HC-type zinc fingers.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri6 – 2520C2HC-type 1Add
BLAST
Zinc fingeri33 – 5119C2HC-type 2Add
BLAST

Keywords - Domaini

Coiled coil, Repeat, Zinc-finger

Phylogenomic databases

eggNOGiNOG253936.
HOGENOMiHOG000006633.
HOVERGENiHBG006298.
InParanoidiQ9NX58.
KOiK15263.
OrthoDBiEOG7PP58C.
PhylomeDBiQ9NX58.
TreeFamiTF314925.

Family and domain databases

InterProiIPR014898. Znf_C2H2_LYAR.
[Graphical view]
PfamiPF08790. zf-LYAR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9NX58-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVFFTCNACG ESVKKIQVEK HVSVCRNCEC LSCIDCGKDF WGDDYKNHVK
60 70 80 90 100
CISEDQKYGG KGYEGKTHKG DIKQQAWIQK ISELIKRPNV SPKVRELLEQ
110 120 130 140 150
ISAFDNVPRK KAKFQNWMKN SLKVHNESIL DQVWNIFSEA SNSEPVNKEQ
160 170 180 190 200
DQRPLHPVAN PHAEISTKVP ASKVKDAVEQ QGEVKKNKRE RKEERQKKRK
210 220 230 240 250
REKKELKLEN HQENSRNQKP KKRKKGQEAD LEAGGEEVPE ANGSAGKRSK
260 270 280 290 300
KKKQRKDSAS EEEAHVGAGK RKRRHSEVET DSKKKKMKLP EHPEGGEPED
310 320 330 340 350
DEAPAKGKFN WKGTIKAILK QAPDNEITIK KLRKKVLAQY YTVTDEHHRS
360 370
EEELLVIFNK KISKNPTFKL LKDKVKLVK
Length:379
Mass (Da):43,615
Last modified:July 19, 2005 - v2
Checksum:i45159F44C22537DB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti21 – 211H → R in CAG38579 (Ref. 3) Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti151 – 1511D → Y.
Corresponds to variant rs2272739 [ dbSNP | Ensembl ].
VAR_023080
Natural varianti265 – 2651H → R.5 Publications
Corresponds to variant rs7376390 [ dbSNP | Ensembl ].
VAR_023081

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL136750 mRNA. Translation: CAB66684.1.
AK000432 mRNA. Translation: BAA91162.1.
CR533548 mRNA. Translation: CAG38579.1.
CH471131 Genomic DNA. Translation: EAW82437.1.
CH471131 Genomic DNA. Translation: EAW82438.1.
CH471131 Genomic DNA. Translation: EAW82439.1.
BC015796 mRNA. Translation: AAH15796.1.
AF229835 mRNA. Translation: AAF42870.1.
CCDSiCCDS3374.1.
RefSeqiNP_001139197.1. NM_001145725.1.
NP_060286.1. NM_017816.2.
XP_011511807.1. XM_011513505.1.
XP_011511808.1. XM_011513506.1.
UniGeneiHs.425427.

Genome annotation databases

EnsembliENST00000343470; ENSP00000345917; ENSG00000145220.
ENST00000452476; ENSP00000397367; ENSG00000145220.
GeneIDi55646.
KEGGihsa:55646.
UCSCiuc003ght.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL136750 mRNA. Translation: CAB66684.1.
AK000432 mRNA. Translation: BAA91162.1.
CR533548 mRNA. Translation: CAG38579.1.
CH471131 Genomic DNA. Translation: EAW82437.1.
CH471131 Genomic DNA. Translation: EAW82438.1.
CH471131 Genomic DNA. Translation: EAW82439.1.
BC015796 mRNA. Translation: AAH15796.1.
AF229835 mRNA. Translation: AAF42870.1.
CCDSiCCDS3374.1.
RefSeqiNP_001139197.1. NM_001145725.1.
NP_060286.1. NM_017816.2.
XP_011511807.1. XM_011513505.1.
XP_011511808.1. XM_011513506.1.
UniGeneiHs.425427.

3D structure databases

ProteinModelPortaliQ9NX58.
SMRiQ9NX58. Positions 1-67.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120780. 53 interactions.
IntActiQ9NX58. 21 interactions.
MINTiMINT-1391739.
STRINGi9606.ENSP00000345917.

PTM databases

PhosphoSiteiQ9NX58.

Polymorphism and mutation databases

BioMutaiLYAR.
DMDMi71153817.

2D gel databases

SWISS-2DPAGEQ9NX58.

Proteomic databases

MaxQBiQ9NX58.
PaxDbiQ9NX58.
PeptideAtlasiQ9NX58.
PRIDEiQ9NX58.

Protocols and materials databases

DNASUi55646.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000343470; ENSP00000345917; ENSG00000145220.
ENST00000452476; ENSP00000397367; ENSG00000145220.
GeneIDi55646.
KEGGihsa:55646.
UCSCiuc003ght.3. human.

Organism-specific databases

CTDi55646.
GeneCardsiGC04M004269.
H-InvDBHIX0017656.
HGNCiHGNC:26021. LYAR.
HPAiHPA035881.
neXtProtiNX_Q9NX58.
PharmGKBiPA162394697.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG253936.
HOGENOMiHOG000006633.
HOVERGENiHBG006298.
InParanoidiQ9NX58.
KOiK15263.
OrthoDBiEOG7PP58C.
PhylomeDBiQ9NX58.
TreeFamiTF314925.

Miscellaneous databases

ChiTaRSiLYAR. human.
GeneWikiiLYAR.
GenomeRNAii55646.
NextBioi60338.
PROiQ9NX58.

Gene expression databases

BgeeiQ9NX58.
CleanExiHS_LYAR.
ExpressionAtlasiQ9NX58. baseline and differential.
GenevisibleiQ9NX58. HS.

Family and domain databases

InterProiIPR014898. Znf_C2H2_LYAR.
[Graphical view]
PfamiPF08790. zf-LYAR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ARG-265.
    Tissue: Testis.
  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], VARIANT ARG-265.
  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], VARIANT ARG-265.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ARG-265.
  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], VARIANT ARG-265.
    Tissue: Uterus.
  6. "Human acute promyelocytic leukemia cell line NB4's apoptosis related genes."
    Yu W.-Q., Sun B.-Z., Chai Y.-B., Zhu F., Liu X.-S., Li Z., Lu F., Yan W., Yang H., Zhao Z.-L.
    Submitted (JAN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 270-379.
    Tissue: Promyelocytic leukemia.
  7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  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 SER-215 AND SER-244, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiLYAR_HUMAN
AccessioniPrimary (citable) accession number: Q9NX58
Secondary accession number(s): D3DVS4, Q6FI78, Q9NYS1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2005
Last sequence update: July 19, 2005
Last modified: July 22, 2015
This is version 124 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 4
    Human chromosome 4: 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.