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Protein

39S ribosomal protein L39, mitochondrial

Gene

MRPL39

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

Functioni

GO - Molecular functioni

  1. nucleotide binding Source: InterPro
  2. poly(A) RNA binding Source: UniProtKB

GO - Biological processi

  1. mitochondrial translation Source: Reactome
  2. mitochondrial translational elongation Source: Reactome
  3. mitochondrial translational initiation Source: Reactome
  4. mitochondrial translational termination Source: Reactome
  5. organelle organization Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal protein

Enzyme and pathway databases

ReactomeiREACT_267634. Mitochondrial translation initiation.
REACT_268133. Mitochondrial translation elongation.
REACT_268261. Mitochondrial translation termination.

Names & Taxonomyi

Protein namesi
Recommended name:
39S ribosomal protein L39, mitochondrial
Short name:
L39mt
Short name:
MRP-L39
Alternative name(s):
39S ribosomal protein L5, mitochondrial
Short name:
L5mt
Short name:
MRP-L5
Gene namesi
Name:MRPL39
Synonyms:C21orf92, MRPL5, RPML5
ORF Names:MSTP003, PRED22
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 21

Organism-specific databases

HGNCiHGNC:14027. MRPL39.

Subcellular locationi

GO - Cellular componenti

  1. mitochondrial inner membrane Source: Reactome
  2. mitochondrial ribosome Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA30970.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 33833839S ribosomal protein L39, mitochondrialPRO_0000087684Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei126 – 1261N6-acetyllysine1 Publication

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiQ9NYK5.
PaxDbiQ9NYK5.
PRIDEiQ9NYK5.

PTM databases

PhosphoSiteiQ9NYK5.

Expressioni

Tissue specificityi

Isoform 1 is ubiquitously expressed. Isoform 2 is heart-specific.

Gene expression databases

BgeeiQ9NYK5.
CleanExiHS_MRPL39.
ExpressionAtlasiQ9NYK5. baseline and differential.
GenevestigatoriQ9NYK5.

Organism-specific databases

HPAiHPA018331.

Interactioni

Protein-protein interaction databases

BioGridi119918. 73 interactions.
IntActiQ9NYK5. 3 interactions.
STRINGi9606.ENSP00000305682.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3J7Yelectron microscopy3.4071-338[»]
ProteinModelPortaliQ9NYK5.
SMRiQ9NYK5. Positions 86-327.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ribosomal protein L39 family.Curated

Phylogenomic databases

eggNOGiCOG0441.
GeneTreeiENSGT00390000002149.
HOVERGENiHBG023123.
InParanoidiQ9NYK5.
KOiK17420.
OMAiFLTFKDE.
OrthoDBiEOG7T1RCK.
PhylomeDBiQ9NYK5.
TreeFamiTF300858.

Family and domain databases

Gene3Di3.10.20.30. 1 hit.
InterProiIPR012675. Beta-grasp_dom.
IPR012676. TGS-like.
IPR018163. Thr/Ala-tRNA-synth_IIc_edit.
[Graphical view]
SUPFAMiSSF55186. SSF55186. 1 hit.
SSF81271. SSF81271. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q9NYK5-1) [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
MEALAMGSRA LRLWLVAPGG GIKWRFIATS SASQLSPTEL TEMRNDLFNK
60 70 80 90 100
EKARQLSLTP RTEKIEVKHV GKTDPGTVFV MNKNISTPYS CAMHLSEWYC
110 120 130 140 150
RKSILALVDG QPWDMYKPLT KSCEIKFLTF KDCDPGEVNK AYWRSCAMMM
160 170 180 190 200
GCVIERAFKD EYMVNLVRAP EVPVISGAFC YDVVLDSKLD EWMPTKENLR
210 220 230 240 250
SFTKDAHALI YKDLPFETLE VEAKVALEIF QHSKYKVDFI EEKASQNPER
260 270 280 290 300
IVKLHRIGDF IDVSEGPLIP RTSICFQYEV SAVHNLQPTQ PSLIRRFQGV
310 320 330
SLPVHLRAHF TIWDKLLERS RKMVTEDQSK ATEECTST
Length:338
Mass (Da):38,712
Last modified:May 18, 2010 - v3
Checksum:iBB0139678F72B63D
GO
Isoform 2 (identifier: Q9NYK5-2) [UniParc]FASTAAdd to basket

Also known as: MRP-L5V1

The sequence of this isoform differs from the canonical sequence as follows:
     324-338: VTEDQSKATEECTST → TPFPILLLFTTQSFFTTSPESYLLHGTVSE

Show »
Length:353
Mass (Da):40,458
Checksum:iB6371F87123E62EC
GO

Sequence cautioni

The sequence AAF44696.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAQ13505.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAA91177.1 differs from that shown. Reason: Frameshift at position 72. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti140 – 1401K → E in AAF44696 (Ref. 1) Curated
Sequence conflicti140 – 1401K → E in BAA91177 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti31 – 311S → P.4 Publications
Corresponds to variant rs3989369 [ dbSNP | Ensembl ].
VAR_052041

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei324 – 33815VTEDQ…ECTST → TPFPILLLFTTQSFFTTSPE SYLLHGTVSE in isoform 2. 1 PublicationVSP_005718Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF239727 mRNA. Translation: AAF44696.1. Different initiation.
AK000458 mRNA. Translation: BAA91177.1. Frameshift.
AP000223 Genomic DNA. No translation available.
BC004896 mRNA. Translation: AAH04896.2.
BC107719 mRNA. Translation: AAI07720.1.
AF109357 mRNA. Translation: AAQ13505.1. Different initiation.
AF270511 mRNA. Translation: AAK12856.1.
AB051346 Genomic DNA. Translation: BAB54936.1.
CCDSiCCDS13573.1. [Q9NYK5-1]
CCDS33522.1. [Q9NYK5-2]
RefSeqiNP_059142.2. NM_017446.3.
NP_542984.2. NM_080794.3.
XP_006724089.1. XM_006724026.1. [Q9NYK5-2]
UniGeneiHs.420696.

Genome annotation databases

EnsembliENST00000307301; ENSP00000305682; ENSG00000154719. [Q9NYK5-2]
ENST00000352957; ENSP00000284967; ENSG00000154719. [Q9NYK5-1]
GeneIDi54148.
KEGGihsa:54148.
UCSCiuc002yln.3. human. [Q9NYK5-2]
uc002ylo.3. human. [Q9NYK5-1]

Polymorphism databases

DMDMi296452977.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF239727 mRNA. Translation: AAF44696.1. Different initiation.
AK000458 mRNA. Translation: BAA91177.1. Frameshift.
AP000223 Genomic DNA. No translation available.
BC004896 mRNA. Translation: AAH04896.2.
BC107719 mRNA. Translation: AAI07720.1.
AF109357 mRNA. Translation: AAQ13505.1. Different initiation.
AF270511 mRNA. Translation: AAK12856.1.
AB051346 Genomic DNA. Translation: BAB54936.1.
CCDSiCCDS13573.1. [Q9NYK5-1]
CCDS33522.1. [Q9NYK5-2]
RefSeqiNP_059142.2. NM_017446.3.
NP_542984.2. NM_080794.3.
XP_006724089.1. XM_006724026.1. [Q9NYK5-2]
UniGeneiHs.420696.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3J7Yelectron microscopy3.4071-338[»]
ProteinModelPortaliQ9NYK5.
SMRiQ9NYK5. Positions 86-327.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119918. 73 interactions.
IntActiQ9NYK5. 3 interactions.
STRINGi9606.ENSP00000305682.

PTM databases

PhosphoSiteiQ9NYK5.

Polymorphism databases

DMDMi296452977.

Proteomic databases

MaxQBiQ9NYK5.
PaxDbiQ9NYK5.
PRIDEiQ9NYK5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000307301; ENSP00000305682; ENSG00000154719. [Q9NYK5-2]
ENST00000352957; ENSP00000284967; ENSG00000154719. [Q9NYK5-1]
GeneIDi54148.
KEGGihsa:54148.
UCSCiuc002yln.3. human. [Q9NYK5-2]
uc002ylo.3. human. [Q9NYK5-1]

Organism-specific databases

CTDi54148.
GeneCardsiGC21M026957.
HGNCiHGNC:14027. MRPL39.
HPAiHPA018331.
MIMi611845. gene.
neXtProtiNX_Q9NYK5.
PharmGKBiPA30970.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG0441.
GeneTreeiENSGT00390000002149.
HOVERGENiHBG023123.
InParanoidiQ9NYK5.
KOiK17420.
OMAiFLTFKDE.
OrthoDBiEOG7T1RCK.
PhylomeDBiQ9NYK5.
TreeFamiTF300858.

Enzyme and pathway databases

ReactomeiREACT_267634. Mitochondrial translation initiation.
REACT_268133. Mitochondrial translation elongation.
REACT_268261. Mitochondrial translation termination.

Miscellaneous databases

ChiTaRSiMRPL39. human.
GeneWikiiMRPL39.
GenomeRNAii54148.
NextBioi56504.
PROiQ9NYK5.
SOURCEiSearch...

Gene expression databases

BgeeiQ9NYK5.
CleanExiHS_MRPL39.
ExpressionAtlasiQ9NYK5. baseline and differential.
GenevestigatoriQ9NYK5.

Family and domain databases

Gene3Di3.10.20.30. 1 hit.
InterProiIPR012675. Beta-grasp_dom.
IPR012676. TGS-like.
IPR018163. Thr/Ala-tRNA-synth_IIc_edit.
[Graphical view]
SUPFAMiSSF55186. SSF55186. 1 hit.
SSF81271. SSF81271. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Construction of a transcript map in the LL56-APP region of chromosome 21q21.1-21.2."
    Choi D.K., Taylor T.D., Hattori M., Sakaki Y.
    Submitted (JAN-2000) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT PRO-31.
  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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT PRO-31.
  3. "The DNA sequence of human chromosome 21."
    Hattori M., Fujiyama A., Taylor T.D., Watanabe H., Yada T., Park H.-S., Toyoda A., Ishii K., Totoki Y., Choi D.-K., Groner Y., Soeda E., Ohki M., Takagi T., Sakaki Y., Taudien S., Blechschmidt K., Polley A.
    , Menzel U., Delabar J., Kumpf K., Lehmann R., Patterson D., Reichwald K., Rump A., Schillhabel M., Schudy A., Zimmermann W., Rosenthal A., Kudoh J., Shibuya K., Kawasaki K., Asakawa S., Shintani A., Sasaki T., Nagamine K., Mitsuyama S., Antonarakis S.E., Minoshima S., Shimizu N., Nordsiek G., Hornischer K., Brandt P., Scharfe M., Schoen O., Desario A., Reichelt J., Kauer G., Bloecker H., Ramser J., Beck A., Klages S., Hennig S., Riesselmann L., Dagand E., Wehrmeyer S., Borzym K., Gardiner K., Nizetic D., Francis F., Lehrach H., Reinhardt R., Yaspo M.-L.
    Nature 405:311-319(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT PRO-31.
    Tissue: Muscle.
  5. Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 5-338 (ISOFORM 1), VARIANT PRO-31.
    Tissue: Heart.
  6. "Heart-specific splice-variant of a human mitochondrial ribosomal protein (mRNA processing; tissue specific splicing)."
    Spirina O., Bykhovskaya Y., Kajava A.V., O'Brien T.W., Nierlich D.P., Mougey E.B., Sylvester J.E., Graack H.-R., Wittmann-Liebold B., Fischel-Ghodsian N.
    Gene 261:229-234(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 150-338 (ISOFORM 2).
    Tissue: Heart.
  7. "The human mitochondrial ribosomal protein genes: mapping of 54 genes to the chromosomes and implications for human disorders."
    Kenmochi N., Suzuki T., Uechi T., Magoori M., Kuniba M., Higa S., Watanabe K., Tanaka T.
    Genomics 77:65-70(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 175-183.
  8. "Mammalian mitochondrial ribosomal proteins (2). Amino acid sequencing, characterization, and identification of corresponding gene sequences."
    O'Brien T.W., Fiesler S.E., Denslow N.D., Thiede B., Wittmann-Liebold B., Mougey E.B., Sylvester J.E., Graack H.R.
    J. Biol. Chem. 274:36043-36051(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION.
  9. "Lysine acetylation targets protein complexes and co-regulates major cellular functions."
    Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M.
    Science 325:834-840(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-126, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiRM39_HUMAN
AccessioniPrimary (citable) accession number: Q9NYK5
Secondary accession number(s): C9JYA5
, Q32Q74, Q5QTR3, Q96Q65, Q9BSQ7, Q9BZV6, Q9NX44
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 11, 2001
Last sequence update: May 18, 2010
Last modified: April 1, 2015
This is version 125 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

Caution

Ref. 1 indicates C21orf8 as a synonym for this orf, this is incorrect, C21orf8 is already assigned to another chromosome 21 region.Curated
It is uncertain whether Met-1 or Met-6 is the initiator.Curated

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 21
    Human chromosome 21: 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

External Data

Dasty 3

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 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.