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UniProtKB - A0A448KHK9 (A0A448KHK9_HAEDC)

Entry version 11 (25 May 2022)
Sequence version 1 (08 May 2019)
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Protein

Peptidoglycan D,D-transpeptidase MrdA

Gene

mrdA

Organism
Haemophilus ducreyi
Status
Unreviewed-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>-Protein inferred from homologyi <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 cross-linking of the peptidoglycan cell wall.

UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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

  • Preferential cleavage: (Ac)(2)-L-Lys-D-Ala-|-D-Ala. Also transpeptidation of peptidyl-alanyl moieties that are N-acyl substituents of D-alanine.UniRule annotation EC:3.4.16.4

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: peptidoglycan biosynthesis

This protein is involved in the pathway peptidoglycan biosynthesis, which is part of Cell wall biogenesis.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway peptidoglycan biosynthesis and in Cell wall biogenesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 sitei337Acyl-ester intermediateUniRule 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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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 functionCarboxypeptidaseUniRule annotationARBA annotation, Hydrolase, Protease
Biological processCell shape, Cell wall biogenesis/degradationUniRule annotation, Peptidoglycan synthesisUniRule annotation

Enzyme and pathway databases

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...UniPathwayi		UPA00219

<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%5Fand%5Ftaxonomy%5Fsection">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:
Peptidoglycan D,D-transpeptidase MrdAUniRule annotation (EC:3.4.16.4UniRule annotation)
Alternative name(s):
Penicillin-binding protein 2UniRule annotation
Short name:
PBP-2UniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:mrdAUniRule annotationImported
ORF Names:NCTC11483_00411Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiHaemophilus ducreyiImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri730 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Pasteurellales › Pasteurellaceae › Haemophilus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000278368 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 1

<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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular%5Flocation%5Fsection">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei28 – 49HelicalUniRule annotationAdd BLAST22

Keywords - Cellular componenti

Cell inner membraneUniRule annotation, Cell membrane, Membrane

<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

<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%5Fand%5Fdomains%5Fsection">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>Domaini71 – 246PBP_dimerInterPro annotationAdd BLAST176
Domaini278 – 616TranspeptidaseInterPro annotationAdd BLAST339

<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 transpeptidase family. MrdA subfamily.UniRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helixUniRule annotation

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.710.10, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_02081, MrdA_transpept, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR012338, Beta-lactam/transpept-like
IPR005311, PBP_dimer
IPR036138, PBP_dimer_sf
IPR001460, PCN-bd_Tpept
IPR017790, Penicillin-binding_protein_2

Pfam protein domain database

More...Pfami		View protein in Pfam
PF03717, PBP_dimer, 1 hit
PF00905, Transpeptidase, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF56519, SSF56519, 1 hit
SSF56601, SSF56601, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR03423, pbp2_mrdA, 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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

A0A448KHK9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MLGKLTATRI LQKVRDTKAE SNLFARRALI AFFFVLGLTS VLITNLYHLQ 
        60         70         80         90        100
VIHYEDYQTR SDGNRIKLLP VPPTRGLIYD RNGKVLAENI TYFGLYIIPE 
       110        120        130        140        150
KTTDITQTLL ELKEIVGLTD EDIEAFYKEK KRTSRYSPIL LKGNLSEEQI 
       160        170        180        190        200
ARFAVNQYRF PSLDVLAYYK RNYPYAETLT HVLGYVAKIN EKDKKKLEKE 
       210        220        230        240        250
GKFGNYAGSY DIGKLGIEKY YEDQLHGQTG FEEVEINNRG KVIRKLRDQA 
       260        270        280        290        300
GVAGSSIRLS IDVELQQYIQ CVLETQKGSV VVLDPRDSSI LAMVTNPSYD 
       310        320        330        340        350
NNLFVGGVSG ADYKRLLEDP ARPLYSRATQ GAYPPASTVK PFYAVMGLAE 
       360        370        380        390        400
GKITPYTTVY DPGFWIFPGS TQRYRDWKKG GHGSINVNKA IAESSDTFFY 
       410        420        430        440        450
QLAYDTGIDK MAEWMAKFGF GQKTGIDLFE ESSGVYPNRT WKQKRYKKAW 
       460        470        480        490        500
VQGDTIPVGI GQGYWIATPL QLAKAMAILI NNGRVNTPHL MLEIIDSDKT 
       510        520        530        540        550
EAYKDPVLYD DIRGVPKRFW QVAKLGMYNV INSPNGTGKK AGGSFYQAAG 
       560        570        580        590        600
KSGTAQVFNL NGAKYNKDTL KKELHDHAWF ISYAPYEDPK VAVAIILENA 
       610        620        630        640        650
GGGGANAAPV ARQIMDFALT HTFKQHSDNV AQPVQTIEKT QPLERKKDKV 

SNE
Length:653
Mass (Da):73,406
Last modified:May 8, 2019 - 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:i5227DA5EEDA2E0F5
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
LR134364 Genomic DNA Translation: VEG82843.1

NCBI Reference Sequences

More...RefSeqi		WP_064082451.1, NZ_MUYD01000012.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		VEG82843; VEG82843; NCTC11483_00411

Database of genes from NCBI RefSeq genomes

More...GeneIDi		60733514

<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
LR134364 Genomic DNA Translation: VEG82843.1
RefSeqiWP_064082451.1, NZ_MUYD01000012.1

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Genome annotation databases

EnsemblBacteriaiVEG82843; VEG82843; NCTC11483_00411
GeneIDi60733514

Enzyme and pathway databases

UniPathwayiUPA00219

Family and domain databases

Gene3Di3.40.710.10, 1 hit
HAMAPiMF_02081, MrdA_transpept, 1 hit
InterProiView protein in InterPro
IPR012338, Beta-lactam/transpept-like
IPR005311, PBP_dimer
IPR036138, PBP_dimer_sf
IPR001460, PCN-bd_Tpept
IPR017790, Penicillin-binding_protein_2
PfamiView protein in Pfam
PF03717, PBP_dimer, 1 hit
PF00905, Transpeptidase, 1 hit
SUPFAMiSSF56519, SSF56519, 1 hit
SSF56601, SSF56601, 1 hit
TIGRFAMsiTIGR03423, pbp2_mrdA, 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 nameiA0A448KHK9_HAEDC
<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: A0A448KHK9
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: May 8, 2019
Last sequence update: May 8, 2019
Last modified: May 25, 2022
This is version 11 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 statusiUnreviewed (UniProtKB/TrEMBL)
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