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Entry version 89 (03 Jul 2019)
Sequence version 2 (19 Oct 2011)
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Protein

tRNA ligase

Gene

LIG1

Organism
Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
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

One of the two proteins required for the splicing of precursor tRNA molecules containing introns. The ligation activity requires three enzymatic activities: phosphorylation of the 5' terminus of the 3' half-tRNA in the presence of ATP, opening of the 2'3'-cyclic phosphodiester bond of the 5' half-tRNA leaving a 2'-phosphomonoester and ligation of the two tRNA halves in an ATP-dependent reaction.By similarity

<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

  • ATP + (ribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(ribonucleotide)(m) = (ribonucleotide)(n+m) + AMP + diphosphate.Curated EC:6.5.1.3

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 sitei108N6-AMP-lysine intermediateBy similarity1

<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 functionEndonuclease, Hydrolase, Kinase, Ligase, Multifunctional enzyme, Nuclease, Transferase
Biological processtRNA processing
LigandATP-binding, Nucleotide-binding

<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:
tRNA ligase (EC:6.5.1.3Curated)
<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:LIG1
Synonyms:RLG1, TRL1
Ordered Locus Names:CAALFM_C702060WA
ORF Names:CaJ7.0238, CaO19.13864, CaO19.6511
<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>OrganismiCandida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
<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 identifieri237561 [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 lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesDebaryomycetaceaeCandida/Lodderomyces cladeCandida
<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
  • UP000000559 <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 7

Organism-specific databases

Candida Genome Database

More...
CGDi
CAL0000175809 LIG1

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:C7_02060W_A

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<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_00000656341 – 832tRNA ligaseAdd BLAST832

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
P43075

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
5476.C4YTR1

<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

1832
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
P43075

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

<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

<p>This subsection of the ‘Family and domains’ section provides general information on the biological role of a domain. The term ‘domain’ is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

Has three domains each corresponding to an enzymatic activity, namely in N- to C-terminal order: ligase, kinase and cyclic phosphodiesterase (CPDase).By similarity

<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 TRL1 family.Curated

Phylogenomic databases

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P43075

KEGG Orthology (KO)

More...
KOi
K14679

Database of Orthologous Groups

More...
OrthoDBi
343868at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR027417 P-loop_NTPase
IPR019039 RNA_ligase_T4-Rnl1_N
IPR012387 Trl1_fun
IPR015966 tRNA_lig_kin_fungi
IPR015965 tRNA_lig_PDEase

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF09511 RNA_lig_T4_1, 1 hit
PF08302 tRNA_lig_CPD, 1 hit
PF08303 tRNA_lig_kinase, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF019634 tRNA_lig_yeast, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF52540 SSF52540, 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.

P43075-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKDSQSDIIE LCNKLNEATK LKRNGKSIKL TNFVSNTQIK LDSWKFLEWD
60 70 80 90 100
YGKPSVQLPI QARGLFTLNN DTIAVRGYDK FFNVEEKPFT KETNLKTSTH
110 120 130 140 150
GPYEVTLKEN GCIIFISGLS TGDIVVCSKH STGDRIDDNE SDKTTTATAT
160 170 180 190 200
ATAPTRNHAK QGEFELLQQF DGDQQKVKQL AHYLYENNLT VVAELCDDEF
210 220 230 240 250
EEHVLPYPKD KSGLYVHGLN YNTITFKTLP MDQVLQFAKE WGFKYVSYLT
260 270 280 290 300
YDNADELFKF LHKCSETGTY NGREIEGFVI RCHRQSHTNG DTDGDCFFFK
310 320 330 340 350
YKFEQPYLLY RQFREVTKQL LNGTPINSIK IKKNKPITKK YLQFVEKLFE
360 370 380 390 400
QEPEIARNFE NGFDIIKVRQ LFLQSLNETN GMNLLSIDSE LSDQLKNLAL
410 420 430 440 450
ANGNEGLSTT TKYIFVPIAT IGCGKTTVFN TLNNLFPQWT HIQNDNISKK
460 470 480 490 500
AKLKICDLTL LALEDDDQSV VLFDRNNSAS RERRQIFTTI DQKRDEHLDD
510 520 530 540 550
TVDLKYIAIN FIPEDLSEEE LWDITYNRVI QRGDNHQSIK SQSDENLVES
560 570 580 590 600
VMKGFIQRYQ PINTSRSPDD QFDHVIHLKL SKDENSSKSS LENVRIIIDD
610 620 630 640 650
LVQNFPDLIK EKPADELINE CFQKALDYKP TFVKNMTANT IKKDPTYYGI
660 670 680 690 700
AMHYSSILEN LEIVSHNEHF QNIKSHIQTE FHVTLGHIAS SKQDKAGRVK
710 720 730 740 750
WKKLVKTLGK GDPNKPKSAL KFFADVKLLQ IVINTDKLAC IKVEILKIYD
760 770 780 790 800
TNDVLQSEIE PINKQLHITI GCIPPATAVE SNITLEELYD NPDEQELKPD
810 820 830
GTYKCGDDTL HVFNFDNPDL KLFSQQLFVA YQ
Length:832
Mass (Da):95,551
Last modified:October 19, 2011 - v2
<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:i08617FF2127868B3
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti542Q → K in AAA34373 (PubMed:8181747).Curated1
Sequence conflicti783I → M in AAA34373 (PubMed:8181747).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
L13380 Genomic DNA Translation: AAA34373.2
AP006852 Genomic DNA Translation: BAE44723.1
CP017629 Genomic DNA Translation: AOW30569.1

NCBI Reference Sequences

More...
RefSeqi
XP_721349.1, XM_716256.2

Genome annotation databases

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
3636947

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cal:CAALFM_C702060WA

<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
L13380 Genomic DNA Translation: AAA34373.2
AP006852 Genomic DNA Translation: BAE44723.1
CP017629 Genomic DNA Translation: AOW30569.1
RefSeqiXP_721349.1, XM_716256.2

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
5U32X-ray2.19A400-635[»]
SMRiP43075
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

STRINGi5476.C4YTR1

Proteomic databases

PRIDEiP43075

Genome annotation databases

GeneIDi3636947
KEGGical:CAALFM_C702060WA

Organism-specific databases

CGDiCAL0000175809 LIG1
EuPathDBiFungiDB:C7_02060W_A

Phylogenomic databases

InParanoidiP43075
KOiK14679
OrthoDBi343868at2759

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR019039 RNA_ligase_T4-Rnl1_N
IPR012387 Trl1_fun
IPR015966 tRNA_lig_kin_fungi
IPR015965 tRNA_lig_PDEase
PfamiView protein in Pfam
PF09511 RNA_lig_T4_1, 1 hit
PF08302 tRNA_lig_CPD, 1 hit
PF08303 tRNA_lig_kinase, 1 hit
PIRSFiPIRSF019634 tRNA_lig_yeast, 1 hit
SUPFAMiSSF52540 SSF52540, 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 nameiTRNL_CANAL
<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: P43075
Secondary accession number(s): A0A1D8PR09, Q3MPD7, Q5AH27
<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: November 1, 1995
Last sequence update: October 19, 2011
Last modified: July 3, 2019
This is version 89 of the entry and version 2 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 programFungal 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, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Candida albicans
    Candida albicans: entries and gene names
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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