Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

H/ACA ribonucleoprotein complex subunit 4

Gene

Dkc1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Required for telomere maintenance; necessary for correct processing or intranuclear trafficking of TERC, the RNA component of the telomerase reverse transcriptase (TERT) holoenzyme (By similarity). Also required for ribosome biogenesis. Probable catalytic subunit of H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which catalyzes pseudouridylation of rRNA. This involves the isomerization of uridine such that the ribose is subsequently attached to C5, instead of the normal N1. Each rRNA can contain up to 100 pseudouridine ('psi') residues, which may serve to stabilize the conformation of rRNAs.By similarity1 Publication

Catalytic activityi

RNA uridine = RNA pseudouridine.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei126NucleophileBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase, Ribonucleoprotein, RNA-binding
Biological processRibosome biogenesis, rRNA processing

Names & Taxonomyi

Protein namesi
Recommended name:
H/ACA ribonucleoprotein complex subunit 4 (EC:5.4.99.-)
Alternative name(s):
Dyskerin
Nopp140-associated protein of 57 kDa
Nucleolar protein NAP57
Nucleolar protein family A member 4
snoRNP protein DKC1
Gene namesi
Name:Dkc1
Synonyms:Nap57
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi621780. Dkc1.

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00001219852 – 509H/ACA ribonucleoprotein complex subunit 4Add BLAST508

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineBy similarity1
Cross-linki21Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki40Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki44Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki192Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei388PhosphoserineBy similarity1
Cross-linki395Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki425Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei452PhosphoserineCombined sources1
Modified residuei454PhosphoserineCombined sources1
Modified residuei460PhosphothreonineBy similarity1
Modified residuei508PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

PRIDEiP40615.

PTM databases

iPTMnetiP40615.
PhosphoSitePlusiP40615.

Interactioni

Subunit structurei

May interact with TERC, which contains a 3'-terminal domain related to the box H/ACA snoRNAs. May interact with the SMN complex, consisting of SMN1 or SMN2, GEMIN2/SIP1, DDX20/GEMIN3, and GEMIN4. The SMN complex may be required for correct assembly of the H/ACA snoRNP complex. Component of the telomerase holoenzyme complex at least composed of TERT, DKC1, WRAP53/TCAB1, NOP10, NHP2, GAR1, TEP1, EST1A, POT1 and a telomerase RNA template component (TERC) (By similarity). Part of the H/ACA small nucleolar ribonucleoprotein (H/ACA snoRNP) complex, which contains NHP2/NOLA2, GAR1/NOLA1, NOP10/NOLA3, and DKC1/NOLA4, which is presumed to be the catalytic subunit. The complex contains a stable core formed by binding of one or two NOP10-DKC1 heterodimers to NHP2; GAR1 subsequently binds to this core via DKC1. The complex binds a box H/ACA small nucleolar RNA (snoRNA), which may target the specific site of modification within the RNA substrate. During assembly, the complex contains NAF1 instead of GAR1/NOLA1. Specific interactions with snoRNAs or TERC are mediated by GAR1 and NHP2. Associates with NOLC1/NOPP140. Interacts with SHQ1; this interaction may lead to the stabilization of DKC1, from the time of its synthesis until its association with NOP10, NHP2, and NAF1 at the nascent H/ACA RNA (By similarity).By similarity

Binary interactionsi

Show more details

Protein-protein interaction databases

CORUMiP40615.
IntActiP40615. 5 interactors.

Structurei

3D structure databases

ProteinModelPortaliP40615.
SMRiP40615.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini297 – 372PUAPROSITE-ProRule annotationAdd BLAST76

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 22Nucleolar localizationBy similarityAdd BLAST21
Regioni447 – 509Nuclear and nucleolar localizationBy similarityAdd BLAST63

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi12 – 18Poly-Lys7

Sequence similaritiesi

Belongs to the pseudouridine synthase TruB family.Curated

Phylogenomic databases

HOVERGENiHBG081442.
InParanoidiP40615.
KOiK11131.
PhylomeDBiP40615.

Family and domain databases

Gene3Di2.30.130.10. 1 hit.
InterProiView protein in InterPro
IPR012960. Dyskerin-like.
IPR020103. PsdUridine_synth_cat_dom.
IPR002501. PsdUridine_synth_N.
IPR002478. PUA.
IPR015947. PUA-like_domain.
IPR036974. PUA_sf.
IPR004802. tRNA_PsdUridine_synth_B_fam.
IPR032819. TruB_C.
IPR004521. Uncharacterised_CHP00451.
PANTHERiPTHR23127. PTHR23127. 1 hit.
PfamiView protein in Pfam
PF08068. DKCLD. 1 hit.
PF01472. PUA. 1 hit.
PF16198. TruB_C_2. 1 hit.
PF01509. TruB_N. 1 hit.
SMARTiView protein in SMART
SM01136. DKCLD. 1 hit.
SM00359. PUA. 1 hit.
SUPFAMiSSF55120. SSF55120. 1 hit.
SSF88697. SSF88697. 1 hit.
TIGRFAMsiTIGR00425. CBF5. 1 hit.
TIGR00451. unchar_dom_2. 1 hit.
PROSITEiView protein in PROSITE
PS50890. PUA. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P40615-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADAEAAMTF PKKHKKKKER KPLPEADVAE IQHAEDFLIK PESKAAQLDT
60 70 80 90 100
SQWPLLLKNF DRLNVRTTHY TPIPCGSNPL KREIGEYVRT GFINLDKPSN
110 120 130 140 150
PSSHEVVAWI RRILRVEKTG HSGTLDPKVT GCLIVCIERA TRLVKSQQSA
160 170 180 190 200
GKEYVGVVRL HNAIEGTAQL SRALETLTGA LFQRPPLIAA VKRQLRVRTI
210 220 230 240 250
YESRVVEYDP ERRLGVFWVS CEAGTYIRTL CVHLGLLLGV GGQMQELRRV
260 270 280 290 300
RSGVVGERDH MVTMHDVLDA QYLYDHHRDE SYLRRVVFPL EKLLTSHKRL
310 320 330 340 350
VMKDSAVNAI CYGAKIMLPG LLRYEDGIEV NQEVVVITTK GEAVCVAIAL
360 370 380 390 400
MTTAVISTCD HGVVAKIKRV IMERDTYPRK WGLGPKASQK KQLIKQGLLD
410 420 430 440 450
KHGRPTDGTP ASWTRDYVDY SDSSKKATAA EATPGPGVTA DAASIVKRKR
460 470 480 490 500
DSDSDADEAT PTTTPRVKKE KKKKKEKADG GEEAAEDGDG DATRKKKKKK

ARAAEELSG
Length:509
Mass (Da):56,615
Last modified:January 23, 2007 - v4
Checksum:i038862EBBF2A1E2F
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti459 – 508ATPTT…AEELS → RRPLPRP AA sequence (PubMed:7798307).CuratedAdd BLAST50

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z34922 mRNA. Translation: CAA84402.1.
BC099832 mRNA. Translation: AAH99832.1.
PIRiA55163.
RefSeqiNP_596910.1. NM_133419.1.
UniGeneiRn.4223.

Genome annotation databases

GeneIDi170944.
KEGGirno:170944.

Similar proteinsi

Entry informationi

Entry nameiDKC1_RAT
AccessioniPrimary (citable) accession number: P40615
Secondary accession number(s): Q499M9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: January 23, 2007
Last modified: October 25, 2017
This is version 131 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families