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Protein

Glutamyl-tRNA(Gln) amidotransferase subunit D

Gene

gatD

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Allows the formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu-tRNA(Gln). The GatDE system is specific for glutamate and does not act on aspartate.UniRule annotation

Catalytic activityi

ATP + L-glutamyl-tRNA(Gln) + L-glutamine = ADP + phosphate + L-glutaminyl-tRNA(Gln) + L-glutamate.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei102UniRule annotation1
Active sitei178UniRule annotation1
Active sitei179UniRule annotation1
Active sitei256UniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLigase
Biological processProtein biosynthesis
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciPABY272844:G1GT8-759-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
Glutamyl-tRNA(Gln) amidotransferase subunit DUniRule annotation (EC:6.3.5.-UniRule annotation)
Short name:
Glu-ADT subunit DUniRule annotation
Gene namesi
Name:gatDUniRule annotation
Ordered Locus Names:PYRAB07000
ORF Names:PAB1901
OrganismiPyrococcus abyssi (strain GE5 / Orsay)
Taxonomic identifieri272844 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000810 Componenti: Chromosome
  • UP000009139 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001400581 – 438Glutamyl-tRNA(Gln) amidotransferase subunit DAdd BLAST438

Interactioni

Subunit structurei

Heterodimer of GatD and GatE.UniRule annotation

Binary interactionsi

WithEntry#Exp.IntActNotes
gatEQ9V0U03EBI-9023883,EBI-9023893

Protein-protein interaction databases

DIPiDIP-48453N
IntActiQ9V0T9, 1 interactor
STRINGi272844.PAB1901

Structurei

Secondary structure

1438
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi3 – 9Combined sources7
Beta strandi17 – 30Combined sources14
Beta strandi33 – 35Combined sources3
Beta strandi45 – 51Combined sources7
Beta strandi56 – 60Combined sources5
Helixi61 – 63Combined sources3
Beta strandi64 – 71Combined sources8
Beta strandi93 – 98Combined sources6
Beta strandi105 – 108Combined sources4
Turni109 – 112Combined sources4
Beta strandi113 – 116Combined sources4
Helixi120 – 126Combined sources7
Helixi128 – 132Combined sources5
Beta strandi134 – 140Combined sources7
Helixi146 – 148Combined sources3
Helixi151 – 166Combined sources16
Beta strandi170 – 175Combined sources6
Beta strandi178 – 180Combined sources3
Helixi181 – 191Combined sources11
Beta strandi192 – 194Combined sources3
Beta strandi199 – 202Combined sources4
Helixi215 – 226Combined sources12
Beta strandi228 – 230Combined sources3
Beta strandi232 – 244Combined sources13
Beta strandi246 – 250Combined sources5
Beta strandi253 – 256Combined sources4
Beta strandi258 – 260Combined sources3
Beta strandi265 – 267Combined sources3
Beta strandi273 – 276Combined sources4
Beta strandi282 – 285Combined sources4
Beta strandi307 – 311Combined sources5
Helixi319 – 326Combined sources8
Beta strandi330 – 337Combined sources8
Turni338 – 340Combined sources3
Helixi344 – 346Combined sources3
Helixi347 – 355Combined sources9
Beta strandi359 – 369Combined sources11
Beta strandi374 – 376Combined sources3
Helixi377 – 384Combined sources8
Helixi395 – 406Combined sources12
Helixi412 – 420Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZQ1X-ray3.00A/B1-438[»]
ProteinModelPortaliQ9V0T9
SMRiQ9V0T9
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9V0T9

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini92 – 422Asparaginase/glutaminasePROSITE-ProRule annotationAdd BLAST331

Sequence similaritiesi

Belongs to the asparaginase 1 family. GatD subfamily.UniRule annotation

Phylogenomic databases

eggNOGiarCOG01924 Archaea
COG0252 LUCA
HOGENOMiHOG000227975
KOiK09482
OMAiNVYSTGR
OrthoDBiPOG093Z07VD

Family and domain databases

CDDicd08962 GatD, 1 hit
Gene3Di2.30.30.520, 1 hit
3.40.50.1170, 1 hit
3.40.50.40, 1 hit
HAMAPiMF_00586 GatD, 1 hit
InterProiView protein in InterPro
IPR006033 AsnASEI
IPR036152 Asp/glu_Ase-like_sf
IPR006034 Asparaginase/glutaminase-like
IPR020827 Asparaginase/glutaminase_AS1
IPR027475 Asparaginase/glutaminase_AS2
IPR011878 GatD
IPR037222 GatD_N
IPR027473 L-asparaginase_C
IPR027474 L-asparaginase_N
IPR037152 L-asparaginase_N_sf
PfamiView protein in Pfam
PF00710 Asparaginase, 1 hit
PIRSFiPIRSF500175 Glu_ADT_D, 1 hit
PIRSF001220 L-ASNase_gatD, 1 hit
PRINTSiPR00139 ASNGLNASE
SMARTiView protein in SMART
SM00870 Asparaginase, 1 hit
SUPFAMiSSF141300 SSF141300, 1 hit
SSF53774 SSF53774, 1 hit
TIGRFAMsiTIGR00519 asnASE_I, 1 hit
TIGR02153 gatD_arch, 1 hit
PROSITEiView protein in PROSITE
PS00144 ASN_GLN_ASE_1, 1 hit
PS00917 ASN_GLN_ASE_2, 1 hit
PS51732 ASN_GLN_ASE_3, 1 hit

Sequencei

Sequence statusi: Complete.

Q9V0T9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRVDEFLKER NINVGDFVRI TKEEDGEEVT YEGYIMPPYE LSAGDTLVLK
60 70 80 90 100
LENGYNIGIA LEKIRRIEVL ERAKVKPEVH FEALIEGKPG LPEVTIIGTG
110 120 130 140 150
GTIASRIDYE TGAVYPAFTA EELAKAVPEI FEVANVKPKL LFNIFSEDMK
160 170 180 190 200
PKHWVKIAHE VAKALNSGDY GVVVAHGTDT MGYTAAALSF MLRNLGKPVV
210 220 230 240 250
LVGAQRSSDR PSSDAAMNLI CSVRMATSEV AEVMVVMHGE TGDTYCLAHR
260 270 280 290 300
GTKVRKMHTS RRDAFRSIND VPIAKIWPNG EIEFLRKDYR KRSDEEVEVD
310 320 330 340 350
DKIEEKVALV KVYPGISSEI IDFLVDKGYK GIVIEGTGLG HTPNDIIPSI
360 370 380 390 400
ERAVEEGVAV CMTSQCIYGR VNLNVYSTGR KLLKAGVIPC EDMLPETAYV
410 420 430
KLMWVLGHTQ NLEEVRKMML TNYAGEITPY TRFDTYLR
Length:438
Mass (Da):48,860
Last modified:May 1, 2000 - v1
Checksum:i39C616E89496D61C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ248285 Genomic DNA Translation: CAB49614.1
HE613800 Genomic DNA Translation: CCE70091.1
PIRiE75112
RefSeqiWP_010867819.1, NC_000868.1

Genome annotation databases

EnsemblBacteriaiCAB49614; CAB49614; PAB1901
GeneIDi1495604
KEGGipab:PAB1901
PATRICifig|272844.11.peg.735

Similar proteinsi

Entry informationi

Entry nameiGATD_PYRAB
AccessioniPrimary (citable) accession number: Q9V0T9
Secondary accession number(s): G8ZJG4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 25, 2002
Last sequence update: May 1, 2000
Last modified: March 28, 2018
This is version 102 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome
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Main funding by: National Institutes of Health