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Protein

Guanine nucleotide-binding protein-like 3

Gene

GNL3

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

Functioni

May be required to maintain the proliferative capacity of stem cells. Stabilizes MDM2 by preventing its ubiquitination, and hence proteasomal degradation (By similarity).By similarity2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi178 – 181GTPSequence analysis4
Nucleotide bindingi261 – 268GTPSequence analysis8
Nucleotide bindingi305 – 308GTPSequence analysis4

GO - Molecular functioni

  • GTPase activity Source: GO_Central
  • GTP binding Source: UniProtKB
  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

  • cell proliferation Source: Ensembl
  • positive regulation of pri-miRNA transcription from RNA polymerase II promoter Source: BHF-UCL
  • positive regulation of protein localization to chromosome, telomeric region Source: BHF-UCL
  • positive regulation of protein sumoylation Source: BHF-UCL
  • positive regulation of telomere maintenance Source: BHF-UCL
  • regulation of cell proliferation Source: UniProtKB
  • ribosome biogenesis Source: GO_Central
Complete GO annotation...

Keywords - Ligandi

GTP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Guanine nucleotide-binding protein-like 3
Alternative name(s):
E2-induced gene 3 protein
Novel nucleolar protein 47
Short name:
NNP47
Nucleolar GTP-binding protein 3
Nucleostemin
Gene namesi
Name:GNL3
Synonyms:E2IG3, NS
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

HGNCiHGNC:29931. GNL3.

Subcellular locationi

GO - Cellular componenti

  • extracellular space Source: UniProtKB
  • membrane Source: UniProtKB
  • nucleolus Source: UniProtKB
  • nucleoplasm Source: Ensembl
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi26354.
OpenTargetsiENSG00000163938.
PharmGKBiPA134952132.

Polymorphism and mutation databases

BioMutaiGNL3.
DMDMi229462872.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001224441 – 549Guanine nucleotide-binding protein-like 3Add BLAST549

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei79N6-acetyllysineCombined sources1
Cross-linki99Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei101PhosphoserineBy similarity1
Cross-linki114Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei490PhosphoserineCombined sources1
Modified residuei504PhosphoserineBy similarity1
Modified residuei517PhosphoserineCombined sources1
Modified residuei529PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9BVP2.
MaxQBiQ9BVP2.
PaxDbiQ9BVP2.
PeptideAtlasiQ9BVP2.
PRIDEiQ9BVP2.

2D gel databases

SWISS-2DPAGEQ9BVP2.

PTM databases

iPTMnetiQ9BVP2.
PhosphoSitePlusiQ9BVP2.
SwissPalmiQ9BVP2.

Expressioni

Tissue specificityi

Increased levels in lung tissue in cancer patients.1 Publication

Gene expression databases

BgeeiENSG00000163938.
CleanExiHS_GNL3.
ExpressionAtlasiQ9BVP2. baseline and differential.
GenevisibleiQ9BVP2. HS.

Organism-specific databases

HPAiCAB020770.
HPA036742.
HPA036743.

Interactioni

Subunit structurei

Interacts with MDM2; this interaction stabilizes MDM2. Interaction with MDM2 occurs in the nucleoplasm and is triggered by a nucleolar release mechanism, such as mitosis-induced nucleolar disassembly (By similarity). Indirectly interacts with TP53, via MDM2-binding (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
AGO2Q9UKV83EBI-641642,EBI-528269
MDM2Q009873EBI-641642,EBI-389668
PPP2R5AQ151723EBI-641642,EBI-641666
STAT3P407632EBI-641642,EBI-518675
TERTO147463EBI-641642,EBI-1772203

Protein-protein interaction databases

BioGridi117690. 84 interactors.
IntActiQ9BVP2. 33 interactors.
MINTiMINT-1405256.
STRINGi9606.ENSP00000395772.

Structurei

3D structure databases

ProteinModelPortaliQ9BVP2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini131 – 312CP-type GPROSITE-ProRule annotationAdd BLAST182

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 46BasicBy similarityAdd BLAST45
Regioni282 – 456IntermediateBy similarityAdd BLAST175
Regioni465 – 543AcidicBy similarityAdd BLAST79

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili56 – 95Sequence analysisAdd BLAST40

Domaini

The basic domain (B) allows nucleolar localization in the absence of GTP. The intermediate domain (I) inhibits nucleolar localization by the B domain and is required for exit from the nucleolus. Exit from the nucleolus to the nucleoplasm requires both the I and the acidic (A) domains, and may be triggered by GTP hydrolysis (By similarity).By similarity
In contrast to other GTP-binding proteins, this family is characterized by a circular permutation of the GTPase motifs described by a G4-G1-G3 pattern.

Sequence similaritiesi

Belongs to the TRAFAC class YlqF/YawG GTPase family.PROSITE-ProRule annotation
Contains 1 CP-type G (guanine nucleotide-binding) domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG2484. Eukaryota.
COG1161. LUCA.
GeneTreeiENSGT00810000125472.
HOGENOMiHOG000207716.
HOVERGENiHBG051747.
InParanoidiQ9BVP2.
KOiK14538.
OMAiEVCFGKE.
OrthoDBiEOG091G08IZ.
PhylomeDBiQ9BVP2.
TreeFamiTF313085.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR030378. G_CP_dom.
IPR014813. Gnl3_N_dom.
IPR006073. GTP_binding_domain.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF08701. GN3L_Grn1. 1 hit.
PF01926. MMR_HSR1. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51721. G_CP. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9BVP2-1) [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
MKRPKLKKAS KRMTCHKRYK IQKKVREHHR KLRKEAKKRG HKKPRKDPGV
60 70 80 90 100
PNSAPFKEAL LREAELRKQR LEELKQQQKL DRQKELEKKR KLETNPDIKP
110 120 130 140 150
SNVEPMEKEF GLCKTENKAK SGKQNSKKLY CQELKKVIEA SDVVLEVLDA
160 170 180 190 200
RDPLGCRCPQ VEEAIVQSGQ KKLVLILNKS DLVPKENLES WLNYLKKELP
210 220 230 240 250
TVVFRASTKP KDKGKITKRV KAKKNAAPFR SEVCFGKEGL WKLLGGFQET
260 270 280 290 300
CSKAIRVGVI GFPNVGKSSI INSLKQEQMC NVGVSMGLTR SMQVVPLDKQ
310 320 330 340 350
ITIIDSPSFI VSPLNSSSAL ALRSPASIEV VKPMEAASAI LSQADARQVV
360 370 380 390 400
LKYTVPGYRN SLEFFTVLAQ RRGMHQKGGI PNVEGAAKLL WSEWTGASLA
410 420 430 440 450
YYCHPPTSWT PPPYFNESIV VDMKSGFNLE ELEKNNAQSI RAIKGPHLAN
460 470 480 490 500
SILFQSSGLT NGIIEEKDIH EELPKRKERK QEEREDDKDS DQETVDEEVD
510 520 530 540
ENSSGMFAAE ETGEALSEET TAGEQSTRSF ILDKIIEEDD AYDFSTDYV
Length:549
Mass (Da):61,993
Last modified:May 5, 2009 - v2
Checksum:iF3928FE1C77C77F4
GO
Isoform 2 (identifier: Q9BVP2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-12: Missing.

Show »
Length:537
Mass (Da):60,540
Checksum:i342BCB22B4234056
GO

Sequence cautioni

The sequence AAF09482 differs from that shown. Reason: Frameshift at position 516.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti3R → K in AAV74413 (PubMed:16012751).Curated1
Sequence conflicti86L → Q in AAV74413 (PubMed:16012751).Curated1
Sequence conflicti436N → D in AAV74413 (PubMed:16012751).Curated1
Sequence conflicti463I → M in BAB55169 (PubMed:14702039).Curated1
Sequence conflicti495V → A in AAV74413 (PubMed:16012751).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02216039R → Q.3 PublicationsCorresponds to variant rs11177dbSNPEnsembl.1
Natural variantiVAR_022161367V → M.Combined sources3 PublicationsCorresponds to variant rs2289247dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0134111 – 12Missing in isoform 2. 1 PublicationAdd BLAST12

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF191018 mRNA. Translation: AAF09482.1. Frameshift.
AY825265 mRNA. Translation: AAV74413.1.
AK027514 mRNA. Translation: BAB55168.1.
AK027516 mRNA. Translation: BAB55169.1.
AK315484 mRNA. Translation: BAG37868.1.
AC104446 Genomic DNA. No translation available.
BC001024 mRNA. Translation: AAH01024.1.
CCDSiCCDS2861.1. [Q9BVP2-1]
CCDS43100.1. [Q9BVP2-2]
RefSeqiNP_055181.3. NM_014366.4. [Q9BVP2-1]
NP_996561.1. NM_206825.1. [Q9BVP2-2]
NP_996562.1. NM_206826.1. [Q9BVP2-2]
UniGeneiHs.313544.

Genome annotation databases

EnsembliENST00000394799; ENSP00000378278; ENSG00000163938. [Q9BVP2-2]
ENST00000418458; ENSP00000395772; ENSG00000163938. [Q9BVP2-1]
GeneIDi26354.
KEGGihsa:26354.
UCSCiuc003dfd.4. human. [Q9BVP2-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF191018 mRNA. Translation: AAF09482.1. Frameshift.
AY825265 mRNA. Translation: AAV74413.1.
AK027514 mRNA. Translation: BAB55168.1.
AK027516 mRNA. Translation: BAB55169.1.
AK315484 mRNA. Translation: BAG37868.1.
AC104446 Genomic DNA. No translation available.
BC001024 mRNA. Translation: AAH01024.1.
CCDSiCCDS2861.1. [Q9BVP2-1]
CCDS43100.1. [Q9BVP2-2]
RefSeqiNP_055181.3. NM_014366.4. [Q9BVP2-1]
NP_996561.1. NM_206825.1. [Q9BVP2-2]
NP_996562.1. NM_206826.1. [Q9BVP2-2]
UniGeneiHs.313544.

3D structure databases

ProteinModelPortaliQ9BVP2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117690. 84 interactors.
IntActiQ9BVP2. 33 interactors.
MINTiMINT-1405256.
STRINGi9606.ENSP00000395772.

PTM databases

iPTMnetiQ9BVP2.
PhosphoSitePlusiQ9BVP2.
SwissPalmiQ9BVP2.

Polymorphism and mutation databases

BioMutaiGNL3.
DMDMi229462872.

2D gel databases

SWISS-2DPAGEQ9BVP2.

Proteomic databases

EPDiQ9BVP2.
MaxQBiQ9BVP2.
PaxDbiQ9BVP2.
PeptideAtlasiQ9BVP2.
PRIDEiQ9BVP2.

Protocols and materials databases

DNASUi26354.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000394799; ENSP00000378278; ENSG00000163938. [Q9BVP2-2]
ENST00000418458; ENSP00000395772; ENSG00000163938. [Q9BVP2-1]
GeneIDi26354.
KEGGihsa:26354.
UCSCiuc003dfd.4. human. [Q9BVP2-1]

Organism-specific databases

CTDi26354.
DisGeNETi26354.
GeneCardsiGNL3.
H-InvDBHIX0003367.
HGNCiHGNC:29931. GNL3.
HPAiCAB020770.
HPA036742.
HPA036743.
MIMi608011. gene.
neXtProtiNX_Q9BVP2.
OpenTargetsiENSG00000163938.
PharmGKBiPA134952132.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2484. Eukaryota.
COG1161. LUCA.
GeneTreeiENSGT00810000125472.
HOGENOMiHOG000207716.
HOVERGENiHBG051747.
InParanoidiQ9BVP2.
KOiK14538.
OMAiEVCFGKE.
OrthoDBiEOG091G08IZ.
PhylomeDBiQ9BVP2.
TreeFamiTF313085.

Miscellaneous databases

ChiTaRSiGNL3. human.
GeneWikiiGNL3.
GenomeRNAii26354.
PROiQ9BVP2.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000163938.
CleanExiHS_GNL3.
ExpressionAtlasiQ9BVP2. baseline and differential.
GenevisibleiQ9BVP2. HS.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR030378. G_CP_dom.
IPR014813. Gnl3_N_dom.
IPR006073. GTP_binding_domain.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF08701. GN3L_Grn1. 1 hit.
PF01926. MMR_HSR1. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS51721. G_CP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGNL3_HUMAN
AccessioniPrimary (citable) accession number: Q9BVP2
Secondary accession number(s): B2RDC1
, Q5PU80, Q96SV6, Q96SV7, Q9UJY0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 12, 2005
Last sequence update: May 5, 2009
Last modified: November 2, 2016
This is version 144 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 3
    Human chromosome 3: 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. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

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 one 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.