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Protein

NHP2-like protein 1

Gene

SNU13

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

Functioni

Involved in pre-mRNA splicing as component of the spliceosome (PubMed:28781166). Binds to the 5'-stem-loop of U4 snRNA and thereby contributes to spliceosome assembly (PubMed:10545122, PubMed:17412961). The protein undergoes a conformational change upon RNA-binding (PubMed:17412961).3 Publications

GO - Molecular functioni

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

GO - Biological processi

Keywordsi

Molecular functionRibonucleoprotein, RNA-binding
Biological processmRNA processing, mRNA splicing

Enzyme and pathway databases

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

EuPathDBiHostDB:ENSG00000100138.13
HGNCiHGNC:7819 SNU13
MIMi601304 gene
601876 gene
neXtProtiNX_P55769

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi38G → K: Abolishes U4 snRNA-binding. 1 Publication1
Mutagenesisi57A → F: Abolishes U4 snRNA-binding. 1 Publication1
Mutagenesisi80Y → A: Reduces U4 snRNA-binding by about 50%. 1 Publication1
Mutagenesisi96 – 128Missing : Abolishes U4 snRNA-binding. 1 PublicationAdd BLAST33

Organism-specific databases

DisGeNETi4809
OpenTargetsiENSG00000100138
PharmGKBiPA31621

Chemistry databases

DrugBankiDB02494 Alpha-Hydroxy-Beta-Phenyl-Propionic Acid
DB07374 Anisomycin

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
ProteomicsDBi56859
TopDownProteomicsiP55769

2D gel databases

SWISS-2DPAGEiP55769

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

Identified in the spliceosome B complex (PubMed:28781166). 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 (PubMed:16723661, PubMed:26912367). Interacts with RAD17 and PRPF31 (PubMed:10593953, PubMed:17412961, PubMed:21784869). The complex formed by SNU13 and PRPF31 binds U4 snRNA (PubMed:17412961). The complex formed by SNU13 and PRPF31 binds also U4atac snRNA, a characteristic component of specific, less abundant spliceosomal complexes (PubMed:21784869).6 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei61Interaction with U4 snRNA and U4atac snRNA2 Publications1
Sitei86Interaction with U4 snRNA and U4atac snRNA2 Publications1

Binary interactionsi

Show more details

GO - Molecular functioni

  • ATPase binding Source: UniProtKB

Protein-protein interaction databases

BioGridi110874, 180 interactors
CORUMiP55769
IntActiP55769, 31 interactors
MINTiP55769
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[»]
5O9Zelectron microscopy4.50O1-128[»]
ProteinModelPortaliP55769
SMRiP55769
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP55769

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni36 – 48Interaction with U4 snRNA and U4atac snRNA2 PublicationsAdd BLAST13
Regioni96 – 128Important for U4 snRNA-binding1 PublicationAdd BLAST33

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG3387 Eukaryota
COG1358 LUCA
GeneTreeiENSGT00550000074840
HOGENOMiHOG000055226
HOVERGENiHBG000328
InParanoidiP55769
KOiK12845
PhylomeDBiP55769
TreeFamiTF300184

Family and domain databases

Gene3Di3.30.1330.30, 1 hit
InterProiView protein in InterPro
IPR002415 H/ACA_rnp_Nhp2_euk
IPR029064 L30e-like
IPR004038 Ribosomal_L7Ae/L30e/S12e/Gad45
IPR018492 Ribosomal_L7Ae/L8/Nhp2
IPR004037 Ribosomal_L7Ae_CS
PfamiView protein in Pfam
PF01248 Ribosomal_L7Ae, 1 hit
PRINTSiPR00881 L7ARS6FAMILY
PR00883 NUCLEARHMG
SUPFAMiSSF55315 SSF55315, 1 hit
PROSITEiView protein in PROSITE
PS01082 RIBOSOMAL_L7AE, 1 hit

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 dbSNP:rs1802521Ensembl.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 No translation available.
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

Similar proteinsi

Entry informationi

Entry nameiNH2L1_HUMAN
AccessioniPrimary (citable) accession number: P55769
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: January 23, 2007
Last modified: June 20, 2018
This is version 185 of the entry and version 3 of the sequence. See 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

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