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Protein

NHP2-like protein 1

Gene

SNU13

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

Functioni

Binds to the 5'-stem-loop of U4 snRNA and may play a role in the late stage of spliceosome assembly. The protein undergoes a conformational change upon RNA-binding.2 Publications

GO - Molecular functioni

  • ATPase binding Source: UniProtKB
  • box C/D snoRNA binding Source: GO_Central
  • poly(A) RNA binding Source: UniProtKB
  • U3 snoRNA binding Source: GO_Central
  • U4atac snRNA binding Source: GO_Central
  • U4 snRNA binding Source: GO_Central

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciZFISH:ENSG00000100138-MONOMER.
ReactomeiR-HSA-6790901. rRNA modification in the nucleus and cytosol.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-HSA-72163. mRNA Splicing - Major Pathway.
R-HSA-72165. mRNA Splicing - Minor Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
NHP2-like protein 1
Alternative name(s):
High mobility group-like nuclear protein 2 homolog 1
OTK27
SNU13 homolog
Short name:
hSNU13
U4/U6.U5 small nuclear ribonucleoprotein SNU13Imported
U4/U6.U5 tri-snRNP 15.5 kDa protein
Cleaved into the following chain:
Gene namesi
Name:SNU13Imported
Synonyms:NHP2L1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 22

Organism-specific databases

HGNCiHGNC:7819. SNU13.

Subcellular locationi

GO - Cellular componenti

  • box C/D snoRNP complex Source: GO_Central
  • dense fibrillar component Source: GO_Central
  • nucleolus Source: GO_Central
  • nucleoplasm Source: Reactome
  • nucleus Source: ProtInc
  • precatalytic spliceosome Source: GO_Central
  • protein complex Source: BHF-UCL
  • small-subunit processome Source: GO_Central
  • U4/U6 x U5 tri-snRNP complex Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi38G → K: Abolishes completely RNA-binding. 1 Publication1
Mutagenesisi57A → F: Abolishes completely RNA-binding. 1 Publication1
Mutagenesisi80Y → A: Abolishes 50% of RNA-binding. 1 Publication1
Mutagenesisi96 – 128Missing : Abolishes completely RNA-binding. Add BLAST33

Organism-specific databases

DisGeNETi4809.
OpenTargetsiENSG00000100138.
PharmGKBiPA31621.

Polymorphism and mutation databases

BioMutaiNHP2L1.
DMDMi2500345.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004232601 – 128NHP2-like protein 1Add BLAST128
Initiator methionineiRemoved; alternateCombined sources1 Publication
ChainiPRO_00001367782 – 128NHP2-like protein 1, N-terminally processedAdd BLAST127

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei2N-acetylthreonine; in NHP2-like protein 1, N-terminally processedCombined sources1 Publication1
Modified residuei21N6-acetyllysineBy similarity1
Modified residuei122PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP55769.
PaxDbiP55769.
PeptideAtlasiP55769.
PRIDEiP55769.
TopDownProteomicsiP55769.

2D gel databases

SWISS-2DPAGEP55769.

PTM databases

iPTMnetiP55769.
PhosphoSitePlusiP55769.
SwissPalmiP55769.

Expressioni

Tissue specificityi

Ubiquitous.

Gene expression databases

BgeeiENSG00000100138.
CleanExiHS_NHP2L1.
ExpressionAtlasiP55769. baseline and differential.
GenevisibleiP55769. HS.

Organism-specific databases

HPAiHPA029199.

Interactioni

Subunit structurei

Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39. Interacts with RAD17 and PRPF31.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
gagP045912EBI-712228,EBI-6179727From a different organism.
NUFIP1Q9UHK02EBI-712228,EBI-2563549

GO - Molecular functioni

  • ATPase binding Source: UniProtKB

Protein-protein interaction databases

BioGridi110874. 170 interactors.
IntActiP55769. 26 interactors.
MINTiMINT-1382515.
STRINGi9606.ENSP00000215956.

Structurei

Secondary structure

1128
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi10 – 13Combined sources4
Helixi16 – 31Combined sources16
Beta strandi35 – 38Combined sources4
Helixi39 – 48Combined sources10
Beta strandi51 – 57Combined sources7
Helixi63 – 65Combined sources3
Helixi68 – 76Combined sources9
Beta strandi80 – 84Combined sources5
Helixi86 – 92Combined sources7
Beta strandi100 – 105Combined sources6
Helixi113 – 124Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1E7KX-ray2.90A/B1-128[»]
2JNBNMR-A1-128[»]
2OZBX-ray2.60A/D1-128[»]
3JCRelectron microscopy7.00I1-128[»]
3SIUX-ray2.63A/D1-128[»]
3SIVX-ray3.30A/D/G/J1-128[»]
ProteinModelPortaliP55769.
SMRiP55769.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP55769.

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L7Ae family.Curated

Phylogenomic databases

eggNOGiKOG3387. Eukaryota.
COG1358. LUCA.
GeneTreeiENSGT00550000074840.
HOGENOMiHOG000055226.
HOVERGENiHBG000328.
InParanoidiP55769.
KOiK12845.
PhylomeDBiP55769.
TreeFamiTF300184.

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
InterProiIPR002415. H/ACA_rnp_Nhp2_euk.
IPR029064. L30e-like.
IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
IPR018492. Ribosomal_L7Ae/L8/Nhp2.
IPR004037. Ribosomal_L7Ae_CS.
[Graphical view]
PfamiPF01248. Ribosomal_L7Ae. 1 hit.
[Graphical view]
PRINTSiPR00881. L7ARS6FAMILY.
PR00883. NUCLEARHMG.
SUPFAMiSSF55315. SSF55315. 1 hit.
PROSITEiPS01082. RIBOSOMAL_L7AE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P55769-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTEADVNPKA YPLADAHLTK KLLDLVQQSC NYKQLRKGAN EATKTLNRGI
60 70 80 90 100
SEFIVMAADA EPLEIILHLP LLCEDKNVPY VFVRSKQALG RACGVSRPVI
110 120
ACSVTIKEGS QLKQQIQSIQ QSIERLLV
Length:128
Mass (Da):14,174
Last modified:January 23, 2007 - v3
Checksum:i78849EBB497089ED
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_03415519T → N.Corresponds to variant rs1802521dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50420 mRNA. Translation: BAA23363.1.
AF155235 mRNA. Translation: AAF06959.1.
AF091076 mRNA. Translation: AAC72945.1.
CR456531 mRNA. Translation: CAG30417.1.
Z83840 Genomic DNA. Translation: CAB46207.1.
BC005358 mRNA. Translation: AAH05358.1.
BC019282 mRNA. Translation: AAH19282.1.
CCDSiCCDS14022.1.
CCDS33653.1.
RefSeqiNP_001003796.1. NM_001003796.1.
NP_004999.1. NM_005008.3.
UniGeneiHs.182255.

Genome annotation databases

EnsembliENST00000215956; ENSP00000215956; ENSG00000100138.
ENST00000355257; ENSP00000347401; ENSG00000100138.
ENST00000401959; ENSP00000383949; ENSG00000100138.
GeneIDi4809.
KEGGihsa:4809.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50420 mRNA. Translation: BAA23363.1.
AF155235 mRNA. Translation: AAF06959.1.
AF091076 mRNA. Translation: AAC72945.1.
CR456531 mRNA. Translation: CAG30417.1.
Z83840 Genomic DNA. Translation: CAB46207.1.
BC005358 mRNA. Translation: AAH05358.1.
BC019282 mRNA. Translation: AAH19282.1.
CCDSiCCDS14022.1.
CCDS33653.1.
RefSeqiNP_001003796.1. NM_001003796.1.
NP_004999.1. NM_005008.3.
UniGeneiHs.182255.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1E7KX-ray2.90A/B1-128[»]
2JNBNMR-A1-128[»]
2OZBX-ray2.60A/D1-128[»]
3JCRelectron microscopy7.00I1-128[»]
3SIUX-ray2.63A/D1-128[»]
3SIVX-ray3.30A/D/G/J1-128[»]
ProteinModelPortaliP55769.
SMRiP55769.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi110874. 170 interactors.
IntActiP55769. 26 interactors.
MINTiMINT-1382515.
STRINGi9606.ENSP00000215956.

PTM databases

iPTMnetiP55769.
PhosphoSitePlusiP55769.
SwissPalmiP55769.

Polymorphism and mutation databases

BioMutaiNHP2L1.
DMDMi2500345.

2D gel databases

SWISS-2DPAGEP55769.

Proteomic databases

EPDiP55769.
PaxDbiP55769.
PeptideAtlasiP55769.
PRIDEiP55769.
TopDownProteomicsiP55769.

Protocols and materials databases

DNASUi4809.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000215956; ENSP00000215956; ENSG00000100138.
ENST00000355257; ENSP00000347401; ENSG00000100138.
ENST00000401959; ENSP00000383949; ENSG00000100138.
GeneIDi4809.
KEGGihsa:4809.

Organism-specific databases

CTDi4809.
DisGeNETi4809.
GeneCardsiNHP2L1.
HGNCiHGNC:7819. SNU13.
HPAiHPA029199.
MIMi601304. gene.
601876. gene.
neXtProtiNX_P55769.
OpenTargetsiENSG00000100138.
PharmGKBiPA31621.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3387. Eukaryota.
COG1358. LUCA.
GeneTreeiENSGT00550000074840.
HOGENOMiHOG000055226.
HOVERGENiHBG000328.
InParanoidiP55769.
KOiK12845.
PhylomeDBiP55769.
TreeFamiTF300184.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000100138-MONOMER.
ReactomeiR-HSA-6790901. rRNA modification in the nucleus and cytosol.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus and cytosol.
R-HSA-72163. mRNA Splicing - Major Pathway.
R-HSA-72165. mRNA Splicing - Minor Pathway.

Miscellaneous databases

ChiTaRSiNHP2L1. human.
EvolutionaryTraceiP55769.
GeneWikiiNHP2L1.
GenomeRNAii4809.
PROiP55769.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000100138.
CleanExiHS_NHP2L1.
ExpressionAtlasiP55769. baseline and differential.
GenevisibleiP55769. HS.

Family and domain databases

Gene3Di3.30.1330.30. 1 hit.
InterProiIPR002415. H/ACA_rnp_Nhp2_euk.
IPR029064. L30e-like.
IPR004038. Ribosomal_L7Ae/L30e/S12e/Gad45.
IPR018492. Ribosomal_L7Ae/L8/Nhp2.
IPR004037. Ribosomal_L7Ae_CS.
[Graphical view]
PfamiPF01248. Ribosomal_L7Ae. 1 hit.
[Graphical view]
PRINTSiPR00881. L7ARS6FAMILY.
PR00883. NUCLEARHMG.
SUPFAMiSSF55315. SSF55315. 1 hit.
PROSITEiPS01082. RIBOSOMAL_L7AE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNH2L1_HUMAN
AccessioniPrimary (citable) accession number: P55769
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 172 of the entry and version 3 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 22
    Human chromosome 22: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. Ribosomal proteins
    Ribosomal proteins families and list of entries
  7. 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.