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Protein

RNA 3'-terminal phosphate cyclase-like protein

Gene

RCL1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Does not have cyclase activity. Plays a role in 40S-ribosomal-subunit biogenesis in the early pre-rRNA processing steps at sites A0, A1 and A2 that are required for proper maturation of the 18S RNA (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Ribosome biogenesis

Enzyme and pathway databases

ReactomeiR-HSA-6790901. rRNA modification in the nucleus.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA 3'-terminal phosphate cyclase-like protein
Gene namesi
Name:RCL1
Synonyms:RNAC, RPC2, RPCL1, RTC2
ORF Names:HSPC338
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 9

Organism-specific databases

HGNCiHGNC:17687. RCL1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134894364.

Polymorphism and mutation databases

DMDMi90103518.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 373373RNA 3'-terminal phosphate cyclase-like proteinPRO_0000156438Add
BLAST

Proteomic databases

EPDiQ9Y2P8.
MaxQBiQ9Y2P8.
PaxDbiQ9Y2P8.
PeptideAtlasiQ9Y2P8.
PRIDEiQ9Y2P8.

PTM databases

iPTMnetiQ9Y2P8.
PhosphoSiteiQ9Y2P8.

Expressioni

Gene expression databases

BgeeiQ9Y2P8.
CleanExiHS_RCL1.
ExpressionAtlasiQ9Y2P8. baseline and differential.
GenevisibleiQ9Y2P8. HS.

Interactioni

Protein-protein interaction databases

BioGridi115473. 18 interactions.
IntActiQ9Y2P8. 8 interactions.
MINTiMINT-3084754.
STRINGi9606.ENSP00000371169.

Structurei

3D structure databases

ProteinModelPortaliQ9Y2P8.
SMRiQ9Y2P8. Positions 8-367.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG3980. Eukaryota.
COG0430. LUCA.
GeneTreeiENSGT00530000063404.
HOGENOMiHOG000110352.
HOVERGENiHBG014327.
KOiK11108.
OMAiVMFSPGL.
OrthoDBiEOG72NRQ9.
PhylomeDBiQ9Y2P8.
TreeFamiTF300831.

Family and domain databases

Gene3Di3.65.10.20. 2 hits.
InterProiIPR013791. RNA3'-term_phos_cycl_insert.
IPR023797. RNA3'_phos_cyclase_dom.
IPR000228. RNA3'_term_phos_cyc.
IPR016443. RNA3'_term_phos_cyc_type_2.
IPR020719. RNA3'_term_phos_cycl-like_CS.
IPR013792. RNA3'P_cycl/enolpyr_Trfase_a/b.
[Graphical view]
PANTHERiPTHR11096. PTHR11096. 1 hit.
PfamiPF01137. RTC. 1 hit.
PF05189. RTC_insert. 1 hit.
[Graphical view]
PIRSFiPIRSF005378. RNA3'_term_phos_cycl_euk. 1 hit.
SUPFAMiSSF55205. SSF55205. 1 hit.
TIGRFAMsiTIGR03400. 18S_RNA_Rcl1p. 1 hit.
PROSITEiPS01287. RTC. 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: Q9Y2P8-1) [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
MATQAHSLSY AGCNFLRQRL VLSTLSGRPV KIRKIRARDD NPGLRDFEAS
60 70 80 90 100
FIRLLDKITN GSRIEINQTG TTLYYQPGLL YGGSVEHDCS VLRGIGYYLE
110 120 130 140 150
SLLCLAPFMK HPLKIVLRGV TNDQVDPSVD VLKATALPLL KQFGIDGESF
160 170 180 190 200
ELKIVRRGMP PGGGGEVVFS CPVRKVLKPI QLTDPGKIKR IRGMAYSVRV
210 220 230 240 250
SPQMANRIVD SARSILNKFI PDIYIYTDHM KGVNSGKSPG FGLSLVAETT
260 270 280 290 300
SGTFLSAELA SNPQGQGAAV LPEDLGRNCA RLLLEEIYRG GCVDSTNQSL
310 320 330 340 350
ALLLMTLGQQ DVSKVLLGPL SPYTIEFLRH LKSFFQIMFK IETKPCGEEL
360 370
KGGDKVLMTC VGIGFSNLSK TLK
Length:373
Mass (Da):40,843
Last modified:March 7, 2006 - v3
Checksum:i533FAE8420AF93CB
GO
Isoform 2 (identifier: Q9Y2P8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-9: MATQAHSLS → MTSLTPGCR
     10-195: Missing.

Note: No experimental confirmation available.
Show »
Length:187
Mass (Da):20,284
Checksum:iA9BF3D695E5E6A1B
GO

Sequence cautioni

The sequence AAD32456.1 differs from that shown. Reason: Frameshift at positions 13 and 58. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti6 – 61H → Y in BAB14300 (PubMed:14702039).Curated
Sequence conflicti46 – 461D → S in AAF29016 (Ref. 8) Curated
Sequence conflicti49 – 491A → S in AAF29016 (Ref. 8) Curated
Sequence conflicti153 – 1531K → N in BAB14300 (PubMed:14702039).Curated
Sequence conflicti310 – 3101Q → R in CAB89811 (PubMed:10790377).Curated
Sequence conflicti310 – 3101Q → R in AAD32456 (PubMed:11042152).Curated
Sequence conflicti310 – 3101Q → R in AAF29016 (Ref. 8) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 99MATQAHSLS → MTSLTPGCR in isoform 2. 1 PublicationVSP_056452
Alternative sequencei10 – 195186Missing in isoform 2. 1 PublicationVSP_056453Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ276894 mRNA. Translation: CAB89811.1.
AK022904 mRNA. Translation: BAB14300.1.
EF553527 mRNA. Translation: ABQ66271.1.
AL158147, AL353151 Genomic DNA. Translation: CAH70320.1.
AL353151, AL158147 Genomic DNA. Translation: CAH72285.1.
CH471071 Genomic DNA. Translation: EAW58776.1.
CH471071 Genomic DNA. Translation: EAW58777.1.
BC001025 mRNA. Translation: AAH01025.1.
AF067172 mRNA. Translation: AAD32456.1. Frameshift.
AF161456 mRNA. Translation: AAF29016.1.
CCDSiCCDS6456.1. [Q9Y2P8-1]
CCDS69565.1. [Q9Y2P8-2]
RefSeqiNP_001273628.1. NM_001286699.1.
NP_001273629.1. NM_001286700.1.
NP_001273630.1. NM_001286701.1. [Q9Y2P8-2]
NP_005763.3. NM_005772.4. [Q9Y2P8-1]
XP_011515975.1. XM_011517673.1. [Q9Y2P8-2]
UniGeneiHs.194121.

Genome annotation databases

EnsembliENST00000381728; ENSP00000371147; ENSG00000120158. [Q9Y2P8-2]
ENST00000381730; ENSP00000371149; ENSG00000120158. [Q9Y2P8-2]
ENST00000381750; ENSP00000371169; ENSG00000120158. [Q9Y2P8-1]
ENST00000448872; ENSP00000388096; ENSG00000120158. [Q9Y2P8-2]
GeneIDi10171.
KEGGihsa:10171.
UCSCiuc003zis.4. human. [Q9Y2P8-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ276894 mRNA. Translation: CAB89811.1.
AK022904 mRNA. Translation: BAB14300.1.
EF553527 mRNA. Translation: ABQ66271.1.
AL158147, AL353151 Genomic DNA. Translation: CAH70320.1.
AL353151, AL158147 Genomic DNA. Translation: CAH72285.1.
CH471071 Genomic DNA. Translation: EAW58776.1.
CH471071 Genomic DNA. Translation: EAW58777.1.
BC001025 mRNA. Translation: AAH01025.1.
AF067172 mRNA. Translation: AAD32456.1. Frameshift.
AF161456 mRNA. Translation: AAF29016.1.
CCDSiCCDS6456.1. [Q9Y2P8-1]
CCDS69565.1. [Q9Y2P8-2]
RefSeqiNP_001273628.1. NM_001286699.1.
NP_001273629.1. NM_001286700.1.
NP_001273630.1. NM_001286701.1. [Q9Y2P8-2]
NP_005763.3. NM_005772.4. [Q9Y2P8-1]
XP_011515975.1. XM_011517673.1. [Q9Y2P8-2]
UniGeneiHs.194121.

3D structure databases

ProteinModelPortaliQ9Y2P8.
SMRiQ9Y2P8. Positions 8-367.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115473. 18 interactions.
IntActiQ9Y2P8. 8 interactions.
MINTiMINT-3084754.
STRINGi9606.ENSP00000371169.

PTM databases

iPTMnetiQ9Y2P8.
PhosphoSiteiQ9Y2P8.

Polymorphism and mutation databases

DMDMi90103518.

Proteomic databases

EPDiQ9Y2P8.
MaxQBiQ9Y2P8.
PaxDbiQ9Y2P8.
PeptideAtlasiQ9Y2P8.
PRIDEiQ9Y2P8.

Protocols and materials databases

DNASUi10171.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000381728; ENSP00000371147; ENSG00000120158. [Q9Y2P8-2]
ENST00000381730; ENSP00000371149; ENSG00000120158. [Q9Y2P8-2]
ENST00000381750; ENSP00000371169; ENSG00000120158. [Q9Y2P8-1]
ENST00000448872; ENSP00000388096; ENSG00000120158. [Q9Y2P8-2]
GeneIDi10171.
KEGGihsa:10171.
UCSCiuc003zis.4. human. [Q9Y2P8-1]

Organism-specific databases

CTDi10171.
GeneCardsiRCL1.
HGNCiHGNC:17687. RCL1.
MIMi611405. gene.
neXtProtiNX_Q9Y2P8.
PharmGKBiPA134894364.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3980. Eukaryota.
COG0430. LUCA.
GeneTreeiENSGT00530000063404.
HOGENOMiHOG000110352.
HOVERGENiHBG014327.
KOiK11108.
OMAiVMFSPGL.
OrthoDBiEOG72NRQ9.
PhylomeDBiQ9Y2P8.
TreeFamiTF300831.

Enzyme and pathway databases

ReactomeiR-HSA-6790901. rRNA modification in the nucleus.
R-HSA-6791226. Major pathway of rRNA processing in the nucleolus.

Miscellaneous databases

ChiTaRSiRCL1. human.
GeneWikiiRCL1.
GenomeRNAii10171.
PROiQ9Y2P8.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y2P8.
CleanExiHS_RCL1.
ExpressionAtlasiQ9Y2P8. baseline and differential.
GenevisibleiQ9Y2P8. HS.

Family and domain databases

Gene3Di3.65.10.20. 2 hits.
InterProiIPR013791. RNA3'-term_phos_cycl_insert.
IPR023797. RNA3'_phos_cyclase_dom.
IPR000228. RNA3'_term_phos_cyc.
IPR016443. RNA3'_term_phos_cyc_type_2.
IPR020719. RNA3'_term_phos_cycl-like_CS.
IPR013792. RNA3'P_cycl/enolpyr_Trfase_a/b.
[Graphical view]
PANTHERiPTHR11096. PTHR11096. 1 hit.
PfamiPF01137. RTC. 1 hit.
PF05189. RTC_insert. 1 hit.
[Graphical view]
PIRSFiPIRSF005378. RNA3'_term_phos_cycl_euk. 1 hit.
SUPFAMiSSF55205. SSF55205. 1 hit.
TIGRFAMsiTIGR03400. 18S_RNA_Rcl1p. 1 hit.
PROSITEiPS01287. RTC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Rcl1p, the yeast protein similar to the RNA 3'-phosphate cyclase, associates with U3 snoRNP and is required for 18S rRNA biogenesis."
    Billy E., Wegierski T., Nasr F., Filipowicz W.
    EMBO J. 19:2115-2126(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Seminoma.
  4. "DNA sequence and analysis of human chromosome 9."
    Humphray S.J., Oliver K., Hunt A.R., Plumb R.W., Loveland J.E., Howe K.L., Andrews T.D., Searle S., Hunt S.E., Scott C.E., Jones M.C., Ainscough R., Almeida J.P., Ambrose K.D., Ashwell R.I.S., Babbage A.K., Babbage S., Bagguley C.L.
    , Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beasley H., Beasley O., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burford D., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Chen Y., Clarke G., Clark S.Y., Clee C.M., Clegg S., Collier R.E., Corby N., Crosier M., Cummings A.T., Davies J., Dhami P., Dunn M., Dutta I., Dyer L.W., Earthrowl M.E., Faulkner L., Fleming C.J., Frankish A., Frankland J.A., French L., Fricker D.G., Garner P., Garnett J., Ghori J., Gilbert J.G.R., Glison C., Grafham D.V., Gribble S., Griffiths C., Griffiths-Jones S., Grocock R., Guy J., Hall R.E., Hammond S., Harley J.L., Harrison E.S.I., Hart E.A., Heath P.D., Henderson C.D., Hopkins B.L., Howard P.J., Howden P.J., Huckle E., Johnson C., Johnson D., Joy A.A., Kay M., Keenan S., Kershaw J.K., Kimberley A.M., King A., Knights A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C., Lloyd D.M., Lovell J., Martin S., Mashreghi-Mohammadi M., Matthews L., McLaren S., McLay K.E., McMurray A., Milne S., Nickerson T., Nisbett J., Nordsiek G., Pearce A.V., Peck A.I., Porter K.M., Pandian R., Pelan S., Phillimore B., Povey S., Ramsey Y., Rand V., Scharfe M., Sehra H.K., Shownkeen R., Sims S.K., Skuce C.D., Smith M., Steward C.A., Swarbreck D., Sycamore N., Tester J., Thorpe A., Tracey A., Tromans A., Thomas D.W., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Williams S.A., Wilming L., Wray P.W., Young L., Ashurst J.L., Coulson A., Blocker H., Durbin R.M., Sulston J.E., Hubbard T., Jackson M.J., Bentley D.R., Beck S., Rogers J., Dunham I.
    Nature 429:369-374(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  6. "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] (ISOFORM 1).
    Tissue: Eye.
  7. "Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells."
    Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X.
    , Gu J., Chen S.-J., Chen Z.
    Genome Res. 10:1546-1560(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 8-373 (ISOFORM 1).
    Tissue: Umbilical cord blood.
  8. "Human partial CDS from CD34+ stem cells."
    Ye M., Zhang Q.-H., Zhou J., Shen Y., Wu X.-Y., Guan Z.Q., Wang L., Fan H.-Y., Mao Y.-F., Dai M., Huang Q.-H., Chen S.-J., Chen Z.
    Submitted (MAY-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 46-373 (ISOFORM 1).
    Tissue: Umbilical cord blood.
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiRCL1_HUMAN
AccessioniPrimary (citable) accession number: Q9Y2P8
Secondary accession number(s): D3DRI2
, Q5VYW9, Q5VZU1, Q9H9D0, Q9NY00, Q9P044
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: March 7, 2006
Last modified: June 8, 2016
This is version 150 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 9
    Human chromosome 9: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. 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.