H/ACA ribonucleoprotein complex subunit 4

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P40615 (DKC1_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 100. History...

Clusters with 100%, 90%, 50% identity |

Documents (1) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

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 names

Name:	Dkc1
Synonyms:	Nap57

Organism

Rattus norvegicus (Rat) [Reference proteome]

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	509 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.4
Catalytic activity	RNA uridine = RNA pseudouridine.
Subunit structure	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. Ref.1 Ref.4
Subcellular location	Nucleus › nucleolus. Nucleus › Cajal body. Note: Also localized to Cajal bodies (coiled bodies). Ref.1 Ref.4
Sequence similarities	Belongs to the pseudouridine synthase TruB family. Contains 1 PUA domain.

Ontologies

Keywords
Biological process	Ribosome biogenesis rRNA processing
Cellular component	Nucleus
Ligand	RNA-binding
Molecular function	Isomerase Ribonucleoprotein
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	cell proliferation Inferred from direct assay PubMed 10679015. Source: RGD pseudouridine synthesis Inferred from electronic annotation. Source: InterPro rRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	Cajal body Inferred from direct assay Ref.1. Source: RGD nucleolus Inferred from direct assay Ref.1. Source: RGD small nucleolar ribonucleoprotein complex Inferred from direct assay PubMed 10679015. Source: RGD
Molecular_function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW pseudouridine synthase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

Removed By similarity

Chain

2 – 509

508

H/ACA ribonucleoprotein complex subunit 4

PRO_0000121985

Regions

Domain

297 – 372

PUA

Region

2 – 22

Nucleolar localization By similarity

Region

447 – 509

Nuclear and nucleolar localization By similarity

Compositional bias

12 – 18

Poly-Lys

Sites

Active site

126

Nucleophile By similarity

Amino acid modifications

Modified residue

N-acetylalanine By similarity

Modified residue

452

Phosphoserine By similarity

Modified residue

454

Phosphoserine By similarity

Modified residue

460

Phosphothreonine By similarity

Modified residue

508

Phosphoserine By similarity

Experimental info

Sequence conflict

459 – 508

ATPTT…AEELS → RRPLPRP AA sequence Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

P40615 [UniParc].

Last modified January 23, 2007. Version 4.
Checksum: 038862EBBF2A1E2F
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FASTA

509

56,615

        10         20         30         40         50         60 
MADAEAAMTF PKKHKKKKER KPLPEADVAE IQHAEDFLIK PESKAAQLDT SQWPLLLKNF 

        70         80         90        100        110        120 
DRLNVRTTHY TPIPCGSNPL KREIGEYVRT GFINLDKPSN PSSHEVVAWI RRILRVEKTG 

       130        140        150        160        170        180 
HSGTLDPKVT GCLIVCIERA TRLVKSQQSA GKEYVGVVRL HNAIEGTAQL SRALETLTGA 

       190        200        210        220        230        240 
LFQRPPLIAA VKRQLRVRTI YESRVVEYDP ERRLGVFWVS CEAGTYIRTL CVHLGLLLGV 

       250        260        270        280        290        300 
GGQMQELRRV RSGVVGERDH MVTMHDVLDA QYLYDHHRDE SYLRRVVFPL EKLLTSHKRL 

       310        320        330        340        350        360 
VMKDSAVNAI CYGAKIMLPG LLRYEDGIEV NQEVVVITTK GEAVCVAIAL MTTAVISTCD 

       370        380        390        400        410        420 
HGVVAKIKRV IMERDTYPRK WGLGPKASQK KQLIKQGLLD KHGRPTDGTP ASWTRDYVDY 

       430        440        450        460        470        480 
SDSSKKATAA EATPGPGVTA DAASIVKRKR DSDSDADEAT PTTTPRVKKE KKKKKEKADG 

       490        500 
GEEAAEDGDG DATRKKKKKK ARAAEELSG

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"NAP57, a mammalian nucleolar protein with a putative homolog in yeast and bacteria." Meier U., Blobel G. J. Cell Biol. 127:1505-1514(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 21-43; 83-96 AND 98-119, SUBCELLULAR LOCATION, INTERACTION WITH NOLC1. Tissue: Liver.
[2]	Meier U. Submitted (DEC-1997) to UniProtKB Cited for: SEQUENCE REVISION TO C-TERMINUS.
[3]	"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]. Tissue: Prostate.
[4]	"Immunopurified small nucleolar ribonucleoprotein particles pseudouridylate rRNA independently of their association with phosphorylated Nopp140." Wang C., Query C.C., Meier U.T. Mol. Cell. Biol. 22:8457-8466(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH GAR1; NHP2; NOP10 AND NOLC1, SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z34922 mRNA. Translation: CAA84402.1. BC099832 mRNA. Translation: AAH99832.1.
IPI	IPI00191460.
PIR	A55163.
RefSeq	NP_596910.1. NM_133419.1.
UniGene	Rn.4223.
3D structure databases
ProteinModelPortal	P40615.
ModBase	Search...
Protein-protein interaction databases
IntAct	P40615. 1 interaction.
PTM databases
PhosphoSite	P40615.
Proteomic databases
PRIDE	P40615.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	170944.
KEGG	rno:170944.
Organism-specific databases
CTD	1736.
RGD	621780. Dkc1.
Phylogenomic databases
HOVERGEN	HBG081442.
KO	K11131.
Gene expression databases
Genevestigator	P40615.
Family and domain databases
InterPro	IPR012960. Dyskerin-like. IPR002501. PsdUridine_synth. IPR020103. PsdUridine_synth_cat_dom. IPR002478. PUA. IPR015947. PUA-like_domain. IPR004802. tRNA_PsdUridine_synth_B_fam. IPR004521. Uncharacterised_CHP00451. [Graphical view]
PANTHER	PTHR23127. PTHR23127. 1 hit.
Pfam	PF08068. DKCLD. 1 hit. PF01472. PUA. 1 hit. PF01509. TruB_N. 1 hit. [Graphical view]
SMART	SM00359. PUA. 1 hit. [Graphical view]
SUPFAM	SSF55120. PsdUridine_synth_cat_dom. 1 hit. SSF88697. PUA-like. 1 hit.
TIGRFAMs	TIGR00425. CBF5. 1 hit. TIGR00451. unchar_dom_2. 1 hit.
PROSITE	PS50890. PUA. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	621465.

Entry information

Entry name

DKC1_RAT

Accession

Primary (citable) accession number: P40615
Secondary accession number(s): Q499M9

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	January 23, 2007
Last modified:	April 3, 2013
This is version 100 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Sites

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents