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Q6PI48

- SYDM_HUMAN

UniProt

Q6PI48 - SYDM_HUMAN

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Protein
Aspartate--tRNA ligase, mitochondrial
Gene
DARS2
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Catalytic activityi

ATP + L-aspartate + tRNA(Asp) = AMP + diphosphate + L-aspartyl-tRNA(Asp).UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei266 – 2661Aspartate By similarity
Binding sitei535 – 5351ATP By similarity
Binding sitei542 – 5421Aspartate By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi266 – 2683ATP By similarity
Nucleotide bindingi584 – 5874ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: BHF-UCL
  2. aspartate-tRNA ligase activity Source: Reactome
  3. aspartate-tRNA(Asn) ligase activity Source: BHF-UCL
  4. protein binding Source: BHF-UCL
  5. protein homodimerization activity Source: BHF-UCL
  6. tRNA binding Source: BHF-UCL

GO - Biological processi

  1. gene expression Source: Reactome
  2. mitochondrial asparaginyl-tRNA aminoacylation Source: BHF-UCL
  3. tRNA aminoacylation Source: BHF-UCL
  4. tRNA aminoacylation for protein translation Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiREACT_15302. Mitochondrial tRNA aminoacylation.

Names & Taxonomyi

Protein namesi
Recommended name:
Aspartate--tRNA ligase, mitochondrial (EC:6.1.1.12)
Alternative name(s):
Aspartyl-tRNA synthetase
Short name:
AspRS
Gene namesi
Name:DARS2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 1

Organism-specific databases

HGNCiHGNC:25538. DARS2.

Subcellular locationi

Mitochondrion matrix 1 Publication

GO - Cellular componenti

  1. mitochondrial matrix Source: Reactome
  2. mitochondrion Source: BHF-UCL
  3. nucleus Source: HPA
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

Pathology & Biotechi

Involvement in diseasei

Leukoencephalopathy with brainstem and spinal cord involvement and lactate elevation (LBSL) [MIM:611105]: Autosomal recessive disease and is defined on the basis of a highly characteristic constellation of abnormalities observed by magnetic resonance imaging and spectroscopy. Affected individuals develop slowly progressive cerebellar ataxia, spasticity, and dorsal column dysfunction, sometimes with a mild cognitive deficit or decline.
Note: The disease is caused by mutations affecting the gene represented in this entry.1 Publication
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti45 – 451S → G in LBSL. 1 Publication
VAR_037015
Natural varianti152 – 1521C → F in LBSL. 1 Publication
VAR_037016
Natural varianti179 – 1791R → H in LBSL. 1 Publication
VAR_037017
Natural varianti184 – 1841Q → K in LBSL. 1 Publication
VAR_037018
Natural varianti248 – 2481Q → K in LBSL. 1 Publication
VAR_037019
Natural varianti263 – 2631R → Q in LBSL. 1 Publication
VAR_037020
Natural varianti560 – 5601D → V in LBSL. 1 Publication
VAR_037021
Natural varianti613 – 6131L → F in LBSL. 1 Publication
VAR_037022
Natural varianti626 – 6261L → Q in LBSL. 1 Publication
VAR_037023
Natural varianti626 – 6261L → V in LBSL. 1 Publication
VAR_037024
Natural varianti629 – 6291Y → C in LBSL. 1 Publication
VAR_037025

Keywords - Diseasei

Disease mutation

Organism-specific databases

MIMi611105. phenotype.
Orphaneti137898. Leukoencephalopathy with brain stem and spinal cord involvement - high lactate.
PharmGKBiPA142672015.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 4747Mitochondrion Reviewed prediction
Add
BLAST
Chaini48 – 645598Aspartate--tRNA ligase, mitochondrialUniRule annotation
PRO_0000250736Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei219 – 2191Phosphothreonine By similarity
Modified residuei382 – 3821N6-acetyllysine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ6PI48.
PaxDbiQ6PI48.
PeptideAtlasiQ6PI48.
PRIDEiQ6PI48.

PTM databases

PhosphoSiteiQ6PI48.

Expressioni

Gene expression databases

ArrayExpressiQ6PI48.
BgeeiQ6PI48.
CleanExiHS_DARS2.
GenevestigatoriQ6PI48.

Organism-specific databases

HPAiHPA026506.
HPA026528.

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

BioGridi120459. 10 interactions.
IntActiQ6PI48. 3 interactions.
STRINGi9606.ENSP00000355086.

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4AH6X-ray3.70A/B/C/D41-645[»]
ProteinModelPortaliQ6PI48.
SMRiQ6PI48. Positions 42-630.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni244 – 2474Aspartate By similarity

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0173.
HOGENOMiHOG000275159.
HOVERGENiHBG055815.
InParanoidiQ6PI48.
KOiK01876.
OMAiFVEQNDV.
OrthoDBiEOG773XFN.
PhylomeDBiQ6PI48.
TreeFamiTF314827.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.30.1360.30. 1 hit.
HAMAPiMF_00044. Asp_tRNA_synth.
InterProiIPR004364. aa-tRNA-synt_II.
IPR018150. aa-tRNA-synt_II-like.
IPR006195. aa-tRNA-synth_II.
IPR004524. Asp-tRNA-ligase_IIb_bac/mt.
IPR002312. Asp/Asn-tRNA-synth_IIb.
IPR004115. GAD-like.
IPR029351. GAD_dom.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
[Graphical view]
PANTHERiPTHR22594. PTHR22594. 1 hit.
PTHR22594:SF5. PTHR22594:SF5. 1 hit.
PfamiPF02938. GAD. 1 hit.
PF00152. tRNA-synt_2. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view]
PRINTSiPR01042. TRNASYNTHASP.
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF55261. SSF55261. 1 hit.
TIGRFAMsiTIGR00459. aspS_bact. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q6PI48-1 [UniParc]FASTAAdd to Basket

« Hide

MYFPSWLSQL YRGLSRPIRR TTQPIWGSLY RSLLQSSQRR IPEFSSFVVR    50
TNTCGELRSS HLGQEVTLCG WIQYRRQNTF LVLRDFDGLV QVIIPQDESA 100
ASVKKILCEA PVESVVQVSG TVISRPAGQE NPKMPTGEIE IKVKTAELLN 150
ACKKLPFEIK NFVKKTEALR LQYRYLDLRS FQMQYNLRLR SQMVMKMREY 200
LCNLHGFVDI ETPTLFKRTP GGAKEFLVPS REPGKFYSLP QSPQQFKQLL 250
MVGGLDRYFQ VARCYRDEGS RPDRQPEFTQ IDIEMSFVDQ TGIQSLIEGL 300
LQYSWPNDKD PVVVPFPTMT FAEVLATYGT DKPDTRFGMK IIDISDVFRN 350
TEIGFLQDAL SKPHGTVKAI CIPEGAKYLK RKDIESIRNF AADHFNQEIL 400
PVFLNANRNW NSPVANFIME SQRLELIRLM ETQEEDVVLL TAGEHNKACS 450
LLGKLRLECA DLLETRGVVL RDPTLFSFLW VVDFPLFLPK EENPRELESA 500
HHPFTAPHPS DIHLLYTEPK KARSQHYDLV LNGNEIGGGS IRIHNAELQR 550
YILATLLKED VKMLSHLLQA LDYGAPPHGG IALGLDRLIC LVTGSPSIRD 600
VIAFPKSFRG HDLMSNTPDS VPPEELKPYH IRVSKPTDSK AERAH 645
Length:645
Mass (Da):73,563
Last modified:July 5, 2004 - v1
Checksum:i8B668751542F01A1
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti10 – 101L → V.
Corresponds to variant rs4427454 [ dbSNP | Ensembl ].
VAR_027612
Natural varianti45 – 451S → G in LBSL. 1 Publication
VAR_037015
Natural varianti152 – 1521C → F in LBSL. 1 Publication
VAR_037016
Natural varianti179 – 1791R → H in LBSL. 1 Publication
VAR_037017
Natural varianti184 – 1841Q → K in LBSL. 1 Publication
VAR_037018
Natural varianti196 – 1961K → R.
Corresponds to variant rs35515638 [ dbSNP | Ensembl ].
VAR_034525
Natural varianti248 – 2481Q → K in LBSL. 1 Publication
VAR_037019
Natural varianti263 – 2631R → Q in LBSL. 1 Publication
VAR_037020
Natural varianti560 – 5601D → V in LBSL. 1 Publication
VAR_037021
Natural varianti613 – 6131L → F in LBSL. 1 Publication
VAR_037022
Natural varianti626 – 6261L → Q in LBSL. 1 Publication
VAR_037023
Natural varianti626 – 6261L → V in LBSL. 1 Publication
VAR_037024
Natural varianti629 – 6291Y → C in LBSL. 1 Publication
VAR_037025

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL109921 Genomic DNA. Translation: CAI20380.1.
BC045173 mRNA. Translation: AAH45173.1.
CCDSiCCDS1311.1.
RefSeqiNP_060592.2. NM_018122.4.
UniGeneiHs.647707.

Genome annotation databases

EnsembliENST00000361951; ENSP00000355086; ENSG00000117593.
GeneIDi55157.
KEGGihsa:55157.
UCSCiuc001gjh.2. human.

Polymorphism databases

DMDMi74758347.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AL109921 Genomic DNA. Translation: CAI20380.1 .
BC045173 mRNA. Translation: AAH45173.1 .
CCDSi CCDS1311.1.
RefSeqi NP_060592.2. NM_018122.4.
UniGenei Hs.647707.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4AH6 X-ray 3.70 A/B/C/D 41-645 [» ]
ProteinModelPortali Q6PI48.
SMRi Q6PI48. Positions 42-630.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 120459. 10 interactions.
IntActi Q6PI48. 3 interactions.
STRINGi 9606.ENSP00000355086.

Chemistry

DrugBanki DB00128. L-Aspartic Acid.

PTM databases

PhosphoSitei Q6PI48.

Polymorphism databases

DMDMi 74758347.

Proteomic databases

MaxQBi Q6PI48.
PaxDbi Q6PI48.
PeptideAtlasi Q6PI48.
PRIDEi Q6PI48.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000361951 ; ENSP00000355086 ; ENSG00000117593 .
GeneIDi 55157.
KEGGi hsa:55157.
UCSCi uc001gjh.2. human.

Organism-specific databases

CTDi 55157.
GeneCardsi GC01P173793.
GeneReviewsi DARS2.
HGNCi HGNC:25538. DARS2.
HPAi HPA026506.
HPA026528.
MIMi 610956. gene.
611105. phenotype.
neXtProti NX_Q6PI48.
Orphaneti 137898. Leukoencephalopathy with brain stem and spinal cord involvement - high lactate.
PharmGKBi PA142672015.
GenAtlasi Search...

Phylogenomic databases

eggNOGi COG0173.
HOGENOMi HOG000275159.
HOVERGENi HBG055815.
InParanoidi Q6PI48.
KOi K01876.
OMAi FVEQNDV.
OrthoDBi EOG773XFN.
PhylomeDBi Q6PI48.
TreeFami TF314827.

Enzyme and pathway databases

Reactomei REACT_15302. Mitochondrial tRNA aminoacylation.

Miscellaneous databases

ChiTaRSi DARS2. human.
GenomeRNAii 55157.
NextBioi 58907.
PROi Q6PI48.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q6PI48.
Bgeei Q6PI48.
CleanExi HS_DARS2.
Genevestigatori Q6PI48.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
3.30.1360.30. 1 hit.
HAMAPi MF_00044. Asp_tRNA_synth.
InterProi IPR004364. aa-tRNA-synt_II.
IPR018150. aa-tRNA-synt_II-like.
IPR006195. aa-tRNA-synth_II.
IPR004524. Asp-tRNA-ligase_IIb_bac/mt.
IPR002312. Asp/Asn-tRNA-synth_IIb.
IPR004115. GAD-like.
IPR029351. GAD_dom.
IPR012340. NA-bd_OB-fold.
IPR004365. NA-bd_OB_tRNA.
[Graphical view ]
PANTHERi PTHR22594. PTHR22594. 1 hit.
PTHR22594:SF5. PTHR22594:SF5. 1 hit.
Pfami PF02938. GAD. 1 hit.
PF00152. tRNA-synt_2. 1 hit.
PF01336. tRNA_anti-codon. 1 hit.
[Graphical view ]
PRINTSi PR01042. TRNASYNTHASP.
SUPFAMi SSF50249. SSF50249. 1 hit.
SSF55261. SSF55261. 1 hit.
TIGRFAMsi TIGR00459. aspS_bact. 1 hit.
PROSITEi PS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "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: Testis.
  3. "Toward the full set of human mitochondrial aminoacyl-tRNA synthetases: characterization of AspRS and TyrRS."
    Bonnefond L., Fender A., Rudinger-Thirion J., Giege R., Florentz C., Sissler M.
    Biochemistry 44:4805-4816(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, SUBUNIT.
  4. "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(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-382, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  6. "Mitochondrial aspartyl-tRNA synthetase deficiency causes leukoencephalopathy with brain stem and spinal cord involvement and lactate elevation."
    Scheper G.C., van der Klok T., van Andel R.J., van Berkel C.G.M., Sissler M., Smet J., Muravina T.I., Serkov S.V., Uziel G., Bugiani M., Schiffmann R., Kraegeloh-Mann I., Smeitink J.A.M., Florentz C., Van Coster R., Pronk J.C., van der Knaap M.S.
    Nat. Genet. 39:534-539(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: VARIANTS LBSL GLY-45; PHE-152; HIS-179; LYS-184; LYS-248; GLN-263; VAL-560; PHE-613; VAL-626; GLN-626 AND CYS-629.

Entry informationi

Entry nameiSYDM_HUMAN
AccessioniPrimary (citable) accession number: Q6PI48
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: July 5, 2004
Last modified: September 3, 2014
This is version 110 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. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  7. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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