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Entry version 108 (08 May 2019)
Sequence version 1 (01 May 2000)
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Protein

Glutamyl-tRNA(Gln) amidotransferase subunit D

Gene

gatD

Organism
Pyrococcus abyssi (strain GE5 / Orsay)
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei102UniRule annotation1
Active sitei178UniRule annotation1
Active sitei179UniRule annotation1
Active sitei256UniRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

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

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
PABY272844:G1GT8-759-MONOMER

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Glutamyl-tRNA(Gln) amidotransferase subunit DUniRule annotation (EC:6.3.5.-UniRule annotation)
Short name:
Glu-ADT subunit DUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:gatDUniRule annotation
Ordered Locus Names:PYRAB07000
ORF Names:PAB1901
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiPyrococcus abyssi (strain GE5 / Orsay)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri272844 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000810 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome
  • UP000009139 Componenti: Chromosome

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001400581 – 438Glutamyl-tRNA(Gln) amidotransferase subunit DAdd BLAST438

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Heterodimer of GatD and GatE.

UniRule annotation

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

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

Protein-protein interaction databases

Database of interacting proteins

More...
DIPi
DIP-48453N

Protein interaction database and analysis system

More...
IntActi
Q9V0T9, 1 interactor

STRING: functional protein association networks

More...
STRINGi
272844.PAB1901

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1438
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q9V0T9

Database of comparative protein structure models

More...
ModBasei
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
Q9V0T9

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini92 – 422Asparaginase/glutaminasePROSITE-ProRule annotationAdd BLAST331

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

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

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
arCOG01924 Archaea
COG0252 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000227975

KEGG Orthology (KO)

More...
KOi
K09482

Identification of Orthologs from Complete Genome Data

More...
OMAi
VRKNHTS

Database of Orthologous Groups

More...
OrthoDBi
61613at2157

Family and domain databases

Conserved Domains Database

More...
CDDi
cd08962 GatD, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
2.30.30.520, 1 hit
3.40.50.1170, 1 hit
3.40.50.40, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00586 GatD, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006033 AsnA_fam
IPR036152 Asp/glu_Ase-like_sf
IPR006034 Asparaginase/glutaminase-like
IPR020827 Asparaginase/glutaminase_AS1
IPR027475 Asparaginase/glutaminase_AS2
IPR040919 Asparaginase_C
IPR011878 GatD
IPR040918 GatD_N
IPR037222 GatD_N_sf
IPR027473 L-asparaginase_C
IPR027474 L-asparaginase_N
IPR037152 L-asparaginase_N_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00710 Asparaginase, 1 hit
PF17763 Asparaginase_C, 1 hit
PF18195 GatD_N, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF500175 Glu_ADT_D, 1 hit
PIRSF001220 L-ASNase_gatD, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00139 ASNGLNASE

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00870 Asparaginase, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF141300 SSF141300, 1 hit
SSF53774 SSF53774, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00519 asnASE_I, 1 hit
TIGR02153 gatD_arch, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00144 ASN_GLN_ASE_1, 1 hit
PS00917 ASN_GLN_ASE_2, 1 hit
PS51732 ASN_GLN_ASE_3, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i39C616E89496D61C
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AJ248285 Genomic DNA Translation: CAB49614.1
HE613800 Genomic DNA Translation: CCE70091.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E75112

NCBI Reference Sequences

More...
RefSeqi
WP_010867819.1, NC_000868.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
CAB49614; CAB49614; PAB1901

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
1495604

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
pab:PAB1901

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|272844.11.peg.735

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

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

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZQ1X-ray3.00A/B1-438[»]
SMRiQ9V0T9
ModBaseiSearch...

Protein-protein interaction databases

DIPiDIP-48453N
IntActiQ9V0T9, 1 interactor
STRINGi272844.PAB1901

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Phylogenomic databases

eggNOGiarCOG01924 Archaea
COG0252 LUCA
HOGENOMiHOG000227975
KOiK09482
OMAiVRKNHTS
OrthoDBi61613at2157

Enzyme and pathway databases

BioCyciPABY272844:G1GT8-759-MONOMER

Miscellaneous databases

EvolutionaryTraceiQ9V0T9

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 AsnA_fam
IPR036152 Asp/glu_Ase-like_sf
IPR006034 Asparaginase/glutaminase-like
IPR020827 Asparaginase/glutaminase_AS1
IPR027475 Asparaginase/glutaminase_AS2
IPR040919 Asparaginase_C
IPR011878 GatD
IPR040918 GatD_N
IPR037222 GatD_N_sf
IPR027473 L-asparaginase_C
IPR027474 L-asparaginase_N
IPR037152 L-asparaginase_N_sf
PfamiView protein in Pfam
PF00710 Asparaginase, 1 hit
PF17763 Asparaginase_C, 1 hit
PF18195 GatD_N, 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

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiGATD_PYRAB
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q9V0T9
Secondary accession number(s): G8ZJG4
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 25, 2002
Last sequence update: May 1, 2000
Last modified: May 8, 2019
This is version 108 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
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