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Entry version 101 (29 Sep 2021)
Sequence version 1 (01 Mar 2001)
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Protein

Lysine decarboxylase LdcA

Gene

ldcA

Organism
Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
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

Plays an essential role in lysine utilization by acting as a lysine decarboxylase.

2 Publications

<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 functionDecarboxylase, Lyase
Biological processVirulence
LigandPyridoxal phosphate

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
PAER208964:G1FZ6-1856-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:
Lysine decarboxylase LdcA1 Publication (EC:4.1.1.181 Publication)
<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:ldcA1 Publication
Ordered Locus Names:PA1818
<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>OrganismiPseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
<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 identifieri208964 [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 lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
<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
  • UP000002438 <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

Organism-specific databases

Pseudomonas genome database

More...
PseudoCAPi
PA1818

<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

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Loss of growth on lysine as sole carbon source (PubMed:20833801). Inactivation leads also to a decrease of virulence showing the importance of LdcA involvement in polyamine homeostasis during infection of the host (PubMed:31653338).2 Publications

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004488791 – 751Lysine decarboxylase LdcAAdd BLAST751

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q9I2S7

PRoteomics IDEntifications database

More...
PRIDEi
Q9I2S7

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

Transcriptionally regulated by ArgR in response to arginine but not lysine showing a tight connection of lysine catabolism to the arginine regulatory network.1 Publication

<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

Homodecamer.

1 Publication

<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

3D structure databases

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

More...
SMRi
Q9I2S7

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

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_014292_3_0_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9I2S7

Identification of Orthologs from Complete Genome Data

More...
OMAi
WSTLLTE

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9I2S7

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00615, Orn_deC_like, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.640.10, 1 hit
3.90.1150.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR005308, OKR_de-COase_N
IPR011193, Orn/lys/arg_de-COase
IPR000310, Orn/Lys/Arg_deCO2ase_major_dom
IPR008286, Prn/Lys/Arg_de-COase_C
IPR036633, Prn/Lys/Arg_de-COase_C_sf
IPR015424, PyrdxlP-dep_Trfase
IPR015421, PyrdxlP-dep_Trfase_major
IPR015422, PyrdxlP-dep_Trfase_small

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01276, OKR_DC_1, 1 hit
PF03711, OKR_DC_1_C, 1 hit
PF03709, OKR_DC_1_N, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF009393, Orn_decarb, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF53383, SSF53383, 1 hit
SSF55904, SSF55904, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00703, OKR_DC_1, 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.

Q9I2S7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYKDLKFPVL IVHRDIKADT VAGERVRGIA HELEQDGFSI LSTASSAEGR
60 70 80 90 100
IVASTHHGLA CILVAAEGAG ENQRLLQDVV ELIRVARVRA PQLPIFALGE
110 120 130 140 150
QVTIENAPAE SMADLHQLRG ILYLFEDTVP FLARQVARAA RNYLAGLLPP
160 170 180 190 200
FFRALVEHTA QSNYSWHTPG HGGGVAYRKS PVGQAFHQFF GENTLRSDLS
210 220 230 240 250
VSVPELGSLL DHTGPLAEAE DRAARNFGAD HTFFVINGTS TANKIVWHSM
260 270 280 290 300
VGREDLVLVD RNCHKSILHS IIMTGAIPLY LTPERNELGI IGPIPLSEFS
310 320 330 340 350
KQSIAAKIAA SPLARGREPK VKLAVVTNST YDGLCYNAEL IKQTLGDSVE
360 370 380 390 400
VLHFDEAWYA YAAFHEFYDG RYGMGTSRSE EGPLVFATHS THKMLAAFSQ
410 420 430 440 450
ASMIHVQDGG TRKLDVARFN EAFMMHISTS PQYGIIASLD VASAMMEGPA
460 470 480 490 500
GRSLIQETFD EALSFRRALA NVRQNLDRND WWFGVWQPEQ VEGTDQVGTH
510 520 530 540 550
DWVLEPSADW HGFGDIAEDY VLLDPIKVTL TTPGLSAGGK LSEQGIPAAI
560 570 580 590 600
VSRFLWERGL VVEKTGLYSF LVLFSMGITK GKWSTLVTEL LEFKRCYDAN
610 620 630 640 650
LPLLDVLPSV AQAGGKRYNG VGLRDLSDAM HASYRDNATA KAMKRMYTVL
660 670 680 690 700
PEVAMRPSEA YDKLVRGEVE AVPIARLEGR IAAVMLVPYP PGIPLIMPGE
710 720 730 740 750
RFTEATRSIL DYLEFARTFE RAFPGFDSDV HGLQHQDGPS GRCYTVECIK

E
Length:751
Mass (Da):82,757
Last modified:March 1, 2001 - 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:i4A32C928AA8468A1
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AE004091 Genomic DNA Translation: AAG05207.1

Protein sequence database of the Protein Information Resource

More...
PIRi
D83418

NCBI Reference Sequences

More...
RefSeqi
NP_250509.1, NC_002516.2
WP_003113592.1, NZ_QZGE01000003.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAG05207; AAG05207; PA1818

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
878596

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
pae:PA1818

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|208964.12.peg.1888

<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
AE004091 Genomic DNA Translation: AAG05207.1
PIRiD83418
RefSeqiNP_250509.1, NC_002516.2
WP_003113592.1, NZ_QZGE01000003.1

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
6Q6Ielectron microscopy3.70A1-751[»]
SMRiQ9I2S7
ModBaseiSearch...
PDBe-KBiSearch...

Proteomic databases

PaxDbiQ9I2S7
PRIDEiQ9I2S7

Genome annotation databases

EnsemblBacteriaiAAG05207; AAG05207; PA1818
GeneIDi878596
KEGGipae:PA1818
PATRICifig|208964.12.peg.1888

Organism-specific databases

PseudoCAPiPA1818

Phylogenomic databases

HOGENOMiCLU_014292_3_0_6
InParanoidiQ9I2S7
OMAiWSTLLTE
PhylomeDBiQ9I2S7

Enzyme and pathway databases

BioCyciPAER208964:G1FZ6-1856-MONOMER

Family and domain databases

CDDicd00615, Orn_deC_like, 1 hit
Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 1 hit
InterProiView protein in InterPro
IPR005308, OKR_de-COase_N
IPR011193, Orn/lys/arg_de-COase
IPR000310, Orn/Lys/Arg_deCO2ase_major_dom
IPR008286, Prn/Lys/Arg_de-COase_C
IPR036633, Prn/Lys/Arg_de-COase_C_sf
IPR015424, PyrdxlP-dep_Trfase
IPR015421, PyrdxlP-dep_Trfase_major
IPR015422, PyrdxlP-dep_Trfase_small
PfamiView protein in Pfam
PF01276, OKR_DC_1, 1 hit
PF03711, OKR_DC_1_C, 1 hit
PF03709, OKR_DC_1_N, 1 hit
PIRSFiPIRSF009393, Orn_decarb, 1 hit
SUPFAMiSSF53383, SSF53383, 1 hit
SSF55904, SSF55904, 1 hit
PROSITEiView protein in PROSITE
PS00703, OKR_DC_1, 1 hit

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 nameiLDCA_PSEAE
<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: Q9I2S7
<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: February 26, 2020
Last sequence update: March 1, 2001
Last modified: September 29, 2021
This is version 101 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, 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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