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Entry version 119 (08 May 2019)
Sequence version 1 (01 Oct 2002)
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Protein

Pyrrolysine--tRNA ligase

Gene

pylS

Organism
Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
Status
Reviewed-Annotation score:

Annotation score:2 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

Catalyzes the attachment of pyrrolysine to tRNA(Pyl). Pyrrolysine is a lysine derivative encoded by the termination codon UAG.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

<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 functionAminoacyl-tRNA synthetase, Ligase
Biological processProtein biosynthesis
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MMAZ192952:G1FZI-1501-MONOMER

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
6.1.1.26 3270

<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:
Pyrrolysine--tRNA ligaseUniRule annotation (EC:6.1.1.26UniRule annotation)
Alternative name(s):
Pyrrolysine--tRNA(Pyl) ligase
Pyrrolysyl-tRNA synthetaseUniRule annotation
Short name:
PylRSUniRule 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:pylSUniRule annotation
Ordered Locus Names:MM_1445
<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>OrganismiMethanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88) (Methanosarcina frisia)
<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 identifieri192952 [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 lineageiArchaeaEuryarchaeotaStenosarchaea groupMethanomicrobiaMethanosarcinalesMethanosarcinaceaeMethanosarcina
<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
  • UP000000595 <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

<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

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

<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_00002604531 – 454Pyrrolysine--tRNA ligaseAdd BLAST454

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
Q8PWY1

<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
192952.MM_1445

<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

1454
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

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
2E3CX-ray2.65A185-454[»]
2Q7EX-ray1.80A185-454[»]
2Q7GX-ray1.90A185-454[»]
2Q7HX-ray2.10A185-454[»]
2ZCEX-ray1.80A185-454[»]
2ZIMX-ray2.10A185-454[»]
2ZINX-ray1.79A185-454[»]
2ZIOX-ray2.06A185-454[»]
3QTCX-ray1.75A185-454[»]
3VQVX-ray1.90A185-454[»]
3VQWX-ray2.40A185-454[»]
3VQXX-ray2.30A/B/C/D185-454[»]
4BW9X-ray2.35A185-454[»]
4BWAX-ray2.45A185-454[»]
4CH3X-ray2.28A185-454[»]
4CH4X-ray2.16A185-454[»]
4CH5X-ray2.20A185-454[»]
4CH6X-ray2.05A185-454[»]
4CS2X-ray1.90A188-454[»]
4CS3X-ray1.50A188-454[»]
4CS4X-ray1.35A188-454[»]
4Q6GX-ray2.25A188-454[»]
4TQDX-ray2.14A185-454[»]
4TQFX-ray2.71A185-454[»]
4ZIBX-ray2.05A185-454[»]
5K1PX-ray1.50A188-454[»]
5K1XX-ray1.95A188-454[»]
5UD5X-ray2.35A/B1-101[»]
5V6XX-ray2.76A/B1-101[»]

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

More...
SMRi
Q8PWY1

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
Q8PWY1

<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 information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the class-II aminoacyl-tRNA synthetase family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
arCOG00413 Archaea
ENOG410ZS8D LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000115810

KEGG Orthology (KO)

More...
KOi
K11627

Identification of Orthologs from Complete Genome Data

More...
OMAi
RPMLAPN

Database of Orthologous Groups

More...
OrthoDBi
25314at2157

Family and domain databases

HAMAP database of protein families

More...
HAMAPi
MF_01573 Pyl_tRNA_synth, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006195 aa-tRNA-synth_II
IPR002319 Phenylalanyl-tRNA_Synthase
IPR012739 Pyrrolysyl-tRNA_ligase
IPR023877 Pyrrolysyl-tRNA_ligase_C
IPR023878 Pyrrolysyl-tRNA_ligase_N

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01409 tRNA-synt_2d, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR02367 PylS_Cterm, 1 hit
TIGR03912 PylS_Nterm, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 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>.<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.

Q8PWY1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDKKPLNTLI SATGLWMSRT GTIHKIKHHE VSRSKIYIEM ACGDHLVVNN
60 70 80 90 100
SRSSRTARAL RHHKYRKTCK RCRVSDEDLN KFLTKANEDQ TSVKVKVVSA
110 120 130 140 150
PTRTKKAMPK SVARAPKPLE NTEAAQAQPS GSKFSPAIPV STQESVSVPA
160 170 180 190 200
SVSTSISSIS TGATASALVK GNTNPITSMS APVQASAPAL TKSQTDRLEV
210 220 230 240 250
LLNPKDEISL NSGKPFRELE SELLSRRKKD LQQIYAEERE NYLGKLEREI
260 270 280 290 300
TRFFVDRGFL EIKSPILIPL EYIERMGIDN DTELSKQIFR VDKNFCLRPM
310 320 330 340 350
LAPNLYNYLR KLDRALPDPI KIFEIGPCYR KESDGKEHLE EFTMLNFCQM
360 370 380 390 400
GSGCTRENLE SIITDFLNHL GIDFKIVGDS CMVYGDTLDV MHGDLELSSA
410 420 430 440 450
VVGPIPLDRE WGIDKPWIGA GFGLERLLKV KHDFKNIKRA ARSESYYNGI

STNL
Length:454
Mass (Da):50,921
Last modified:October 1, 2002 - 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:iD6BE5A812B5CA96E
GO

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
AE008384 Genomic DNA Translation: AAM31141.1

NCBI Reference Sequences

More...
RefSeqi
WP_011033391.1, NC_003901.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAM31141; AAM31141; MM_1445

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
24883267

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
mma:MM_1445

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|192952.21.peg.1671

<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
AE008384 Genomic DNA Translation: AAM31141.1
RefSeqiWP_011033391.1, NC_003901.1

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2E3CX-ray2.65A185-454[»]
2Q7EX-ray1.80A185-454[»]
2Q7GX-ray1.90A185-454[»]
2Q7HX-ray2.10A185-454[»]
2ZCEX-ray1.80A185-454[»]
2ZIMX-ray2.10A185-454[»]
2ZINX-ray1.79A185-454[»]
2ZIOX-ray2.06A185-454[»]
3QTCX-ray1.75A185-454[»]
3VQVX-ray1.90A185-454[»]
3VQWX-ray2.40A185-454[»]
3VQXX-ray2.30A/B/C/D185-454[»]
4BW9X-ray2.35A185-454[»]
4BWAX-ray2.45A185-454[»]
4CH3X-ray2.28A185-454[»]
4CH4X-ray2.16A185-454[»]
4CH5X-ray2.20A185-454[»]
4CH6X-ray2.05A185-454[»]
4CS2X-ray1.90A188-454[»]
4CS3X-ray1.50A188-454[»]
4CS4X-ray1.35A188-454[»]
4Q6GX-ray2.25A188-454[»]
4TQDX-ray2.14A185-454[»]
4TQFX-ray2.71A185-454[»]
4ZIBX-ray2.05A185-454[»]
5K1PX-ray1.50A188-454[»]
5K1XX-ray1.95A188-454[»]
5UD5X-ray2.35A/B1-101[»]
5V6XX-ray2.76A/B1-101[»]
SMRiQ8PWY1
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi192952.MM_1445

Proteomic databases

PRIDEiQ8PWY1

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM31141; AAM31141; MM_1445
GeneIDi24883267
KEGGimma:MM_1445
PATRICifig|192952.21.peg.1671

Phylogenomic databases

eggNOGiarCOG00413 Archaea
ENOG410ZS8D LUCA
HOGENOMiHOG000115810
KOiK11627
OMAiRPMLAPN
OrthoDBi25314at2157

Enzyme and pathway databases

BioCyciMMAZ192952:G1FZI-1501-MONOMER
BRENDAi6.1.1.26 3270

Miscellaneous databases

EvolutionaryTraceiQ8PWY1

Family and domain databases

HAMAPiMF_01573 Pyl_tRNA_synth, 1 hit
InterProiView protein in InterPro
IPR006195 aa-tRNA-synth_II
IPR002319 Phenylalanyl-tRNA_Synthase
IPR012739 Pyrrolysyl-tRNA_ligase
IPR023877 Pyrrolysyl-tRNA_ligase_C
IPR023878 Pyrrolysyl-tRNA_ligase_N
PfamiView protein in Pfam
PF01409 tRNA-synt_2d, 1 hit
TIGRFAMsiTIGR02367 PylS_Cterm, 1 hit
TIGR03912 PylS_Nterm, 1 hit
PROSITEiView protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
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 nameiPYLS_METMA
<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: Q8PWY1
<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 28, 2006
Last sequence update: October 1, 2002
Last modified: May 8, 2019
This is version 119 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, Reference 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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