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UniProtKB - Q03524 (SP5D_BACSU)

Entry version 139 (07 Apr 2021)
Sequence version 3 (16 Jun 2009)
Previous versions | rss
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Protein

Stage V sporulation protein D

Gene

spoVD

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score:

Annotation score:4 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

Penicillin-binding protein with an unknown catalytic activity. May have a specialized role in the morphogenesis of spore cortex, which is a modified form of peptidoglycan. Spore cortex formation is determined primarily by the mother cell.1 Publication

<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.Curated 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.
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 sitei294Acyl-ester 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

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 functionCarboxypeptidase, Hydrolase, Protease
Biological processCell shape, Cell wall biogenesis/degradation, Peptidoglycan synthesis, Sporulation

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		BSUB:BSU15170-MONOMER

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:
Stage V sporulation protein D (EC:3.4.16.4Curated)
Alternative name(s):
Sporulation-specific penicillin-binding protein
<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:spoVD
Ordered Locus Names:BSU15170
<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>OrganismiBacillus subtilis (strain 168)
<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 identifieri224308 [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 › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus ›
<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
  • UP000001570 <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

<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

Keywords - Cellular componenti

Cell membrane, Membrane

<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

Asporogeneous; spore development starts but does not develop the spore cortex.1 Publication

<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_00001954661 – 646Stage V sporulation protein DAdd BLAST646

Proteomic databases

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

More...PaxDbi		Q03524

PRoteomics IDEntifications database

More...PRIDEi		Q03524

<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 provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified 'at the protein level'.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stagei

Expressed during sporulation; strong expression 60-150 minutes after sporulation onset, falls to background expression by 240 minutes. Found only in mother cells.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

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		224308.BSU15170

<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		Q03524

Database of comparative protein structure models

More...ModBasei		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

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>Domaini580 – 638PASTAPROSITE-ProRule annotationAdd BLAST59

<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.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG0768, Bacteria

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q03524

Identification of Orthologs from Complete Genome Data

More...OMAi		DPQIVVY

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q03524

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.710.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR012338, Beta-lactam/transpept-like
IPR005543, PASTA_dom
IPR005311, PBP_dimer
IPR036138, PBP_dimer_sf
IPR001460, PCN-bd_Tpept
IPR011927, SpoVD_pbp

Pfam protein domain database

More...Pfami		View protein in Pfam
PF03793, PASTA, 1 hit
PF03717, PBP_dimer, 1 hit
PF00905, Transpeptidase, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00740, PASTA, 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		TIGR02214, spoVD_pbp, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51178, PASTA, 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.

Q03524-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRVSNVTVRK RLLFVLLFGV IVFLIIDTRL GYVQFVMGEK LTSLAKDSWS 
        60         70         80         90        100
RNLPFEPERG EILDRNGVKL ATNKSAPTVF VVPRQVQNPM KTSKQLAAVL 
       110        120        130        140        150
NMSEEKVYKH VTKKASIEKI TPEGRKISNE KAKEIKALDL KGVYVAEDSI 
       160        170        180        190        200
RHYPFGSFLS HVLGFAGIDN QGLLGLEAYY DDDLKGEKGS VKFYTDAKGK 
       210        220        230        240        250
KMPDEADDYT PPKDGLDMKL TVDSKVQTIM ERELDNAEAK YHPDGMIAVA 
       260        270        280        290        300
MNPKNGEILG MSSRPDFDPA DYQSVDPSVY NRNLPVWSTY EPGSTFKIIT 
       310        320        330        340        350
LAAALEEQKV NLKRDQFYDK GHAEVDGARL RCWKRGGHGL QTYLEVVQNS 
       360        370        380        390        400
CNPGFVELGE RLGKEKLFKY IKDFGFGQKT GIDLQGEGTG ILFPLERVGP 
       410        420        430        440        450
VEQATTAFGQ GVSVTPIQQV AAVSAAVNGG TLYTPYIAKE WIDPVTKKTV 
       460        470        480        490        500
KKQSPIAKKQ VISEETSKQI RYALESVVAE GTGRNAFVEG YRVGGKTGTA 
       510        520        530        540        550
QKVKDGKYLE NNHIVSFIGF APADDPSLVV YVAVDNPKGT IQFGGTVAAP 
       560        570        580        590        600
IVGNIMRDSL PELGVKPRKN QIEKKYQWND TKTIEVPNVV GMSVSDLESL 
       610        620        630        640 
LVNLNVDASG KGSKIVKQSP AAGTKVKEGS KIRVYLTEED EKEAAD
Length:646
Mass (Da):71,118
Last modified:June 16, 2009 - v3
<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:i7F576F8DF2E1085C
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 conflicti540 – 549TIQFGGTVAA → AFSLAERWQ in CAA81085 (PubMed:8289242).Curated10

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
Z25865 Genomic DNA Translation: CAA81085.1
AL009126 Genomic DNA Translation: CAB13390.2
L09703 Unassigned DNA Translation: AAC36838.1
Z15056 Genomic DNA Translation: CAA78766.1
Z68230 Genomic DNA Translation: CAA92528.1

Protein sequence database of the Protein Information Resource

More...PIRi		S49570

NCBI Reference Sequences

More...RefSeqi		NP_389400.2, NC_000964.3
WP_003245048.1, NZ_JNCM01000035.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		CAB13390; CAB13390; BSU_15170

Database of genes from NCBI RefSeq genomes

More...GeneIDi		936661

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		bsu:BSU15170

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|224308.179.peg.1653

<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
Z25865 Genomic DNA Translation: CAA81085.1
AL009126 Genomic DNA Translation: CAB13390.2
L09703 Unassigned DNA Translation: AAC36838.1
Z15056 Genomic DNA Translation: CAA78766.1
Z68230 Genomic DNA Translation: CAA92528.1
PIRiS49570
RefSeqiNP_389400.2, NC_000964.3
WP_003245048.1, NZ_JNCM01000035.1

3D structure databases

SMRiQ03524
ModBaseiSearch...

Protein-protein interaction databases

STRINGi224308.BSU15170

Proteomic databases

PaxDbiQ03524
PRIDEiQ03524

Genome annotation databases

EnsemblBacteriaiCAB13390; CAB13390; BSU_15170
GeneIDi936661
KEGGibsu:BSU15170
PATRICifig|224308.179.peg.1653

Phylogenomic databases

eggNOGiCOG0768, Bacteria
InParanoidiQ03524
OMAiDPQIVVY
PhylomeDBiQ03524

Enzyme and pathway databases

UniPathwayiUPA00219
BioCyciBSUB:BSU15170-MONOMER

Family and domain databases

Gene3Di3.40.710.10, 1 hit
InterProiView protein in InterPro
IPR012338, Beta-lactam/transpept-like
IPR005543, PASTA_dom
IPR005311, PBP_dimer
IPR036138, PBP_dimer_sf
IPR001460, PCN-bd_Tpept
IPR011927, SpoVD_pbp
PfamiView protein in Pfam
PF03793, PASTA, 1 hit
PF03717, PBP_dimer, 1 hit
PF00905, Transpeptidase, 1 hit
SMARTiView protein in SMART
SM00740, PASTA, 1 hit
SUPFAMiSSF56519, SSF56519, 1 hit
SSF56601, SSF56601, 1 hit
TIGRFAMsiTIGR02214, spoVD_pbp, 1 hit
PROSITEiView protein in PROSITE
PS51178, PASTA, 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 nameiSP5D_BACSU
<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: Q03524
<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/Swiss-Prot: October 1, 1993
Last sequence update: June 16, 2009
Last modified: April 7, 2021
This is version 139 of the entry and version 3 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

Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families
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