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Protein

La-related protein 6

Gene

LARP6

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Regulates the coordinated translation of type I collagen alpha-1 and alpha-2 mRNAs, CO1A1 and CO1A2. Stabilizes mRNAs through high-affinity binding of a stem-loop structure in their 5' UTR. This regulation requires VIM and MYH10 filaments, and the helicase DHX9.3 Publications

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Translation regulation

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
La-related protein 6
Alternative name(s):
Acheron
Short name:
Achn
La ribonucleoprotein domain family member 6
Gene namesi
Name:LARP6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 15

Organism-specific databases

HGNCiHGNC:24012. LARP6.

Subcellular locationi

  • Cytoplasm 1 Publication
  • Nucleus 1 Publication

  • Note: Shuttles between the nucleus and the cytoplasm.

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671568.

Polymorphism and mutation databases

BioMutaiLARP6.
DMDMi74752287.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedCombined sources
Chaini2 – 491490La-related protein 6PRO_0000281141Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineCombined sources
Modified residuei56 – 561PhosphoserineBy similarity
Modified residuei58 – 581PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9BRS8.
MaxQBiQ9BRS8.
PaxDbiQ9BRS8.
PRIDEiQ9BRS8.

PTM databases

iPTMnetiQ9BRS8.
PhosphoSiteiQ9BRS8.

Expressioni

Tissue specificityi

Expressed in numerous tissues.1 Publication

Gene expression databases

BgeeiQ9BRS8.
CleanExiHS_LARP6.
ExpressionAtlasiQ9BRS8. baseline and differential.
GenevisibleiQ9BRS8. HS.

Organism-specific databases

HPAiHPA020338.
HPA049029.

Interactioni

Subunit structurei

Interacts (via the HTH domain) with VIM/vimentin. Interacts (via C-terminus) with non-muscle myosin MYH10. Interacts (via C-terminus) with DHX9.3 Publications

Protein-protein interaction databases

BioGridi120604. 3 interactions.
STRINGi9606.ENSP00000299213.

Structurei

Secondary structure

1
491
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi78 – 803Combined sources
Helixi90 – 10314Combined sources
Helixi106 – 1094Combined sources
Turni113 – 1153Combined sources
Helixi116 – 1194Combined sources
Beta strandi122 – 1243Combined sources
Helixi129 – 1335Combined sources
Turni136 – 1405Combined sources
Helixi145 – 1539Combined sources
Beta strandi157 – 1593Combined sources
Turni162 – 1654Combined sources
Turni177 – 1793Combined sources
Beta strandi185 – 1895Combined sources
Turni195 – 1995Combined sources
Helixi209 – 22416Combined sources
Beta strandi227 – 2337Combined sources
Turni235 – 2373Combined sources
Helixi241 – 2466Combined sources
Turni247 – 2493Combined sources
Beta strandi253 – 2553Combined sources
Beta strandi258 – 2647Combined sources
Helixi266 – 27914Combined sources
Turni280 – 2845Combined sources
Beta strandi287 – 2915Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2MTFNMR-A70-183[»]
2MTGNMR-A178-295[»]
ProteinModelPortaliQ9BRS8.
SMRiQ9BRS8. Positions 70-295.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini86 – 17792HTH La-type RNA-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini184 – 296113RRMAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi186 – 1938Nuclear export signal
Motifi296 – 3027Nuclear localization signal

Domaini

The RRM domain mediates the association with collagen mRNAs stem-loops.

Sequence similaritiesi

Contains 1 HTH La-type RNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG1855. Eukaryota.
ENOG4110VUA. LUCA.
GeneTreeiENSGT00830000128323.
HOGENOMiHOG000010108.
HOVERGENiHBG070244.
InParanoidiQ9BRS8.
KOiK18733.
OMAiEEGGMRK.
OrthoDBiEOG79GT6K.
PhylomeDBiQ9BRS8.
TreeFamiTF326594.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.30.70.330. 1 hit.
InterProiIPR002344. Lupus_La.
IPR006630. Lupus_La_RNA-bd.
IPR012677. Nucleotide-bd_a/b_plait.
IPR024642. SUZ-C.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF05383. La. 1 hit.
PF12901. SUZ-C. 1 hit.
[Graphical view]
PRINTSiPR00302. LUPUSLA.
SMARTiSM00715. LA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS50961. HTH_LA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9BRS8-1) [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
MAQSGGEARP GPKTAVQIRV AIQEAEDVDE LEDEEEGAET RGAGDPARYL
60 70 80 90 100
SPGWGSASEE EPSRGHSGTT ASGGENERED LEQEWKPPDE ELIKKLVDQI
110 120 130 140 150
EFYFSDENLE KDAFLLKHVR RNKLGYVSVK LLTSFKKVKH LTRDWRTTAH
160 170 180 190 200
ALKYSVVLEL NEDHRKVRRT TPVPLFPNEN LPSKMLLVYD LYLSPKLWAL
210 220 230 240 250
ATPQKNGRVQ EKVMEHLLKL FGTFGVISSV RILKPGRELP PDIRRISSRY
260 270 280 290 300
SQVGTQECAI VEFEEVEAAI KAHEFMITES QGKENMKAVL IGMKPPKKKP
310 320 330 340 350
AKDKNHDEEP TASIHLNKSL NKRVEELQYM GDESSANSSS DPESNPTSPM
360 370 380 390 400
AGRRHAATNK LSPSGHQNLF LSPNASPCTS PWSSPLAQRK GVSRKSPLAE
410 420 430 440 450
EGRLNCSTSP EIFRKCMDYS SDSSVTPSGS PWVRRRRQAE MGTQEKSPGT
460 470 480 490
SPLLSRKMQT ADGLPVGVLR LPRGPDNTRG FHGHERSRAC V
Length:491
Mass (Da):54,737
Last modified:June 1, 2001 - v1
Checksum:i2CF3AFFFD69BDD07
GO
Isoform 2 (identifier: Q9BRS8-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     67-491: SGTTASGGEN...HGHERSRACV → RNRSSVNSRTMLASFIVSSAPSTAPST

Note: No experimental confirmation available.
Show »
Length:93
Mass (Da):9,773
Checksum:i88CB7691294B6FD8
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti103 – 1031Y → C in BAA92061 (PubMed:14702039).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei67 – 491425SGTTA…SRACV → RNRSSVNSRTMLASFIVSSA PSTAPST in isoform 2. 1 PublicationVSP_042565Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF443828 mRNA. Translation: AAN76710.1.
AF443829 mRNA. Translation: AAN76711.1.
AK002058 mRNA. Translation: BAA92061.1.
AL833876 mRNA. Translation: CAD38733.2.
AC009269 Genomic DNA. No translation available.
AC090868 Genomic DNA. No translation available.
BC006082 mRNA. Translation: AAH06082.1.
BC009446 mRNA. Translation: AAH09446.1.
BC014018 mRNA. Translation: AAH14018.1.
BC039153 mRNA. Translation: AAH39153.1.
CCDSiCCDS10236.1. [Q9BRS8-2]
CCDS32281.1. [Q9BRS8-1]
RefSeqiNP_001273608.1. NM_001286679.1.
NP_060827.2. NM_018357.3. [Q9BRS8-1]
NP_932062.1. NM_197958.2. [Q9BRS8-2]
UniGeneiHs.416755.

Genome annotation databases

EnsembliENST00000299213; ENSP00000299213; ENSG00000166173. [Q9BRS8-1]
ENST00000344870; ENSP00000343869; ENSG00000166173. [Q9BRS8-2]
GeneIDi55323.
KEGGihsa:55323.
UCSCiuc002ass.5. human. [Q9BRS8-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF443828 mRNA. Translation: AAN76710.1.
AF443829 mRNA. Translation: AAN76711.1.
AK002058 mRNA. Translation: BAA92061.1.
AL833876 mRNA. Translation: CAD38733.2.
AC009269 Genomic DNA. No translation available.
AC090868 Genomic DNA. No translation available.
BC006082 mRNA. Translation: AAH06082.1.
BC009446 mRNA. Translation: AAH09446.1.
BC014018 mRNA. Translation: AAH14018.1.
BC039153 mRNA. Translation: AAH39153.1.
CCDSiCCDS10236.1. [Q9BRS8-2]
CCDS32281.1. [Q9BRS8-1]
RefSeqiNP_001273608.1. NM_001286679.1.
NP_060827.2. NM_018357.3. [Q9BRS8-1]
NP_932062.1. NM_197958.2. [Q9BRS8-2]
UniGeneiHs.416755.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2MTFNMR-A70-183[»]
2MTGNMR-A178-295[»]
ProteinModelPortaliQ9BRS8.
SMRiQ9BRS8. Positions 70-295.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120604. 3 interactions.
STRINGi9606.ENSP00000299213.

PTM databases

iPTMnetiQ9BRS8.
PhosphoSiteiQ9BRS8.

Polymorphism and mutation databases

BioMutaiLARP6.
DMDMi74752287.

Proteomic databases

EPDiQ9BRS8.
MaxQBiQ9BRS8.
PaxDbiQ9BRS8.
PRIDEiQ9BRS8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000299213; ENSP00000299213; ENSG00000166173. [Q9BRS8-1]
ENST00000344870; ENSP00000343869; ENSG00000166173. [Q9BRS8-2]
GeneIDi55323.
KEGGihsa:55323.
UCSCiuc002ass.5. human. [Q9BRS8-1]

Organism-specific databases

CTDi55323.
GeneCardsiLARP6.
HGNCiHGNC:24012. LARP6.
HPAiHPA020338.
HPA049029.
MIMi611300. gene.
neXtProtiNX_Q9BRS8.
PharmGKBiPA142671568.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1855. Eukaryota.
ENOG4110VUA. LUCA.
GeneTreeiENSGT00830000128323.
HOGENOMiHOG000010108.
HOVERGENiHBG070244.
InParanoidiQ9BRS8.
KOiK18733.
OMAiEEGGMRK.
OrthoDBiEOG79GT6K.
PhylomeDBiQ9BRS8.
TreeFamiTF326594.

Miscellaneous databases

ChiTaRSiLARP6. human.
GeneWikiiLARP6.
GenomeRNAii55323.
PROiQ9BRS8.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BRS8.
CleanExiHS_LARP6.
ExpressionAtlasiQ9BRS8. baseline and differential.
GenevisibleiQ9BRS8. HS.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.30.70.330. 1 hit.
InterProiIPR002344. Lupus_La.
IPR006630. Lupus_La_RNA-bd.
IPR012677. Nucleotide-bd_a/b_plait.
IPR024642. SUZ-C.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF05383. La. 1 hit.
PF12901. SUZ-C. 1 hit.
[Graphical view]
PRINTSiPR00302. LUPUSLA.
SMARTiSM00715. LA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS50961. HTH_LA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Acheron, a novel member of the Lupus antigen family, is induced during the programmed cell death of skeletal muscles in the moth Manduca sexta."
    Valavanis C., Wang Z., Sun D., Vaine M., Schwartz L.M.
    Gene 393:101-109(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
    Tissue: Hippocampus and Rhabdomyosarcoma.
  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).
    Tissue: Placenta.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Melanoma.
  4. "Analysis of the DNA sequence and duplication history of human chromosome 15."
    Zody M.C., Garber M., Sharpe T., Young S.K., Rowen L., O'Neill K., Whittaker C.A., Kamal M., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Kodira C.D., Madan A., Qin S., Yang X., Abbasi N., Abouelleil A.
    , Arachchi H.M., Baradarani L., Birditt B., Bloom S., Bloom T., Borowsky M.L., Burke J., Butler J., Cook A., DeArellano K., DeCaprio D., Dorris L. III, Dors M., Eichler E.E., Engels R., Fahey J., Fleetwood P., Friedman C., Gearin G., Hall J.L., Hensley G., Johnson E., Jones C., Kamat A., Kaur A., Locke D.P., Madan A., Munson G., Jaffe D.B., Lui A., Macdonald P., Mauceli E., Naylor J.W., Nesbitt R., Nicol R., O'Leary S.B., Ratcliffe A., Rounsley S., She X., Sneddon K.M.B., Stewart S., Sougnez C., Stone S.M., Topham K., Vincent D., Wang S., Zimmer A.R., Birren B.W., Hood L., Lander E.S., Nusbaum C.
    Nature 440:671-675(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "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] (ISOFORMS 1 AND 2).
    Tissue: Adrenal cortex, Brain and Muscle.
  6. "Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach."
    Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S.
    Anal. Chem. 81:4493-4501(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS], IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  7. "Nonmuscle myosin-dependent synthesis of type I collagen."
    Cai L., Fritz D., Stefanovic L., Stefanovic B.
    J. Mol. Biol. 401:564-578(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH MYH10.
  8. "A novel role of vimentin filaments: binding and stabilization of collagen mRNAs."
    Challa A.A., Stefanovic B.
    Mol. Cell. Biol. 31:3773-3789(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH VIM.
  9. "A novel role of RNA helicase A in regulation of translation of type I collagen mRNAs."
    Manojlovic Z., Stefanovic B.
    RNA 18:321-334(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH DHX9.

Entry informationi

Entry nameiLARP6_HUMAN
AccessioniPrimary (citable) accession number: Q9BRS8
Secondary accession number(s): Q5XKE4, Q8N3N2, Q9NUR0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 20, 2007
Last sequence update: June 1, 2001
Last modified: June 8, 2016
This is version 128 of the entry and version 1 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, Reference proteome

Documents

  1. Human chromosome 15
    Human chromosome 15: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.