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Protein

Murein hydrolase activator NlpD

Gene

nlpD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Activator of the cell wall hydrolase AmiC. Required for septal murein cleavage and daughter cell separation during cell division.2 Publications

GO - Biological processi

  • autolysis Source: EcoliWiki
  • barrier septum assembly Source: EcoCyc
  • cell separation after cytokinesis Source: EcoliWiki
  • positive regulation of hydrolase activity Source: EcoCyc
  • response to drug Source: EcoCyc
Complete GO annotation...

Keywords - Biological processi

Cell cycle, Cell division

Enzyme and pathway databases

BioCyciEcoCyc:EG12111-MONOMER.
ECOL316407:JW2712-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Murein hydrolase activator NlpD
Gene namesi
Name:nlpD
Ordered Locus Names:b2742, JW2712
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12111. nlpD.

Subcellular locationi

  • Cell inner membrane Curated; Lipid-anchor PROSITE-ProRule annotation

  • Note: Localizes at the septal ring.1 Publication

GO - Cellular componenti

  • cell division site Source: EcoliWiki
  • cell outer membrane Source: EcoCyc
  • cytosol Source: EcoCyc
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

Pathology & Biotechi

Disruption phenotypei

Cells are shorter in a single mutant, double envC-nlpD disruptions have defects in septation and cell separation and form long filaments (8-fold longer). Cell length increase is more exacerbated with a triple mepM (yebA) or ygeR disruption (15-fold longer) and further yet by the quadruple disruption mutant (envC-nlpD-mepM(yebA)-ygeR, over 21-fold longer). Quadruple mutants are less sensitive to ampicillin lysis.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2525Add
BLAST
Chaini26 – 379354Murein hydrolase activator NlpDPRO_0000018029Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Lipidationi26 – 261N-palmitoyl cysteinePROSITE-ProRule annotation1 Publication
Lipidationi26 – 261S-diacylglycerol cysteine1 Publication

Keywords - PTMi

Lipoprotein, Palmitate

Proteomic databases

EPDiP0ADA3.
PaxDbiP0ADA3.
PRIDEiP0ADA3.

2D gel databases

SWISS-2DPAGEP0ADA3.

Interactioni

Protein-protein interaction databases

BioGridi4261894. 266 interactions.
DIPiDIP-48067N.
STRINGi511145.b2742.

Structurei

3D structure databases

ProteinModelPortaliP0ADA3.
SMRiP0ADA3. Positions 121-170, 262-376.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati66 – 7381-1
Repeati74 – 8181-2; approximate
Repeati82 – 8981-3
Repeati90 – 9781-4; approximate
Domaini121 – 16545LysMPROSITE-ProRule annotationAdd
BLAST
Repeati205 – 21172-1
Repeati227 – 23372-2
Repeati239 – 24572-3
Repeati246 – 25272-4

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni66 – 97324 X 8 AA tandem repeats of Q-Q-P-Q-I-Q-P-VAdd
BLAST
Regioni205 – 252484 X 7 AA approximate repeatsAdd
BLAST

Sequence similaritiesi

Contains 1 LysM domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal

Phylogenomic databases

eggNOGiENOG4108K5P. Bacteria.
COG0739. LUCA.
HOGENOMiHOG000159026.
InParanoidiP0ADA3.
KOiK06194.
OMAiPTYASAN.
OrthoDBiEOG61ZTBJ.
PhylomeDBiP0ADA3.

Family and domain databases

Gene3Di3.10.350.10. 1 hit.
InterProiIPR011055. Dup_hybrid_motif.
IPR018392. LysM_dom.
IPR016047. Peptidase_M23.
[Graphical view]
PfamiPF01476. LysM. 1 hit.
PF01551. Peptidase_M23. 1 hit.
[Graphical view]
SMARTiSM00257. LysM. 1 hit.
[Graphical view]
SUPFAMiSSF51261. SSF51261. 1 hit.
PROSITEiPS51782. LYSM. 1 hit.
PS51257. PROKAR_LIPOPROTEIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0ADA3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAGSPKFTV RRIAALSLVS LWLAGCSDTS NPPAPVSSVN GNAPANTNSG
60 70 80 90 100
MLITPPPKMG TTSTAQQPQI QPVQQPQIQA TQQPQIQPVQ PVAQQPVQME
110 120 130 140 150
NGRIVYNRQY GNIPKGSYSG STYTVKKGDT LFYIAWITGN DFRDLAQRNN
160 170 180 190 200
IQAPYALNVG QTLQVGNASG TPITGGNAIT QADAAEQGVV IKPAQNSTVA
210 220 230 240 250
VASQPTITYS ESSGEQSANK MLPNNKPTAT TVTAPVTVPT ASTTEPTVSS
260 270 280 290 300
TSTSTPISTW RWPTEGKVIE TFGASEGGNK GIDIAGSKGQ AIIATADGRV
310 320 330 340 350
VYAGNALRGY GNLIIIKHND DYLSAYAHND TMLVREQQEV KAGQKIATMG
360 370
STGTSSTRLH FEIRYKGKSV NPLRYLPQR
Length:379
Mass (Da):40,149
Last modified:December 6, 2005 - v1
Checksum:iA8E6A2B8456105FE
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti139 – 1391G → A in BAA04487 (PubMed:8208244).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07869 Unassigned DNA. Translation: AAA17875.1.
U29579 Genomic DNA. Translation: AAA69252.1.
U00096 Genomic DNA. Translation: AAC75784.1.
AP009048 Genomic DNA. Translation: BAE76819.1.
D17549 Genomic DNA. Translation: BAA04487.1.
PIRiB55522.
RefSeqiNP_417222.1. NC_000913.3.
WP_001272592.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75784; AAC75784; b2742.
BAE76819; BAE76819; BAE76819.
GeneIDi947011.
KEGGiecj:JW2712.
eco:b2742.
PATRICi32120888. VBIEscCol129921_2836.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L07869 Unassigned DNA. Translation: AAA17875.1.
U29579 Genomic DNA. Translation: AAA69252.1.
U00096 Genomic DNA. Translation: AAC75784.1.
AP009048 Genomic DNA. Translation: BAE76819.1.
D17549 Genomic DNA. Translation: BAA04487.1.
PIRiB55522.
RefSeqiNP_417222.1. NC_000913.3.
WP_001272592.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0ADA3.
SMRiP0ADA3. Positions 121-170, 262-376.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261894. 266 interactions.
DIPiDIP-48067N.
STRINGi511145.b2742.

2D gel databases

SWISS-2DPAGEP0ADA3.

Proteomic databases

EPDiP0ADA3.
PaxDbiP0ADA3.
PRIDEiP0ADA3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75784; AAC75784; b2742.
BAE76819; BAE76819; BAE76819.
GeneIDi947011.
KEGGiecj:JW2712.
eco:b2742.
PATRICi32120888. VBIEscCol129921_2836.

Organism-specific databases

EchoBASEiEB2034.
EcoGeneiEG12111. nlpD.

Phylogenomic databases

eggNOGiENOG4108K5P. Bacteria.
COG0739. LUCA.
HOGENOMiHOG000159026.
InParanoidiP0ADA3.
KOiK06194.
OMAiPTYASAN.
OrthoDBiEOG61ZTBJ.
PhylomeDBiP0ADA3.

Enzyme and pathway databases

BioCyciEcoCyc:EG12111-MONOMER.
ECOL316407:JW2712-MONOMER.

Miscellaneous databases

PROiP0ADA3.

Family and domain databases

Gene3Di3.10.350.10. 1 hit.
InterProiIPR011055. Dup_hybrid_motif.
IPR018392. LysM_dom.
IPR016047. Peptidase_M23.
[Graphical view]
PfamiPF01476. LysM. 1 hit.
PF01551. Peptidase_M23. 1 hit.
[Graphical view]
SMARTiSM00257. LysM. 1 hit.
[Graphical view]
SUPFAMiSSF51261. SSF51261. 1 hit.
PROSITEiPS51782. LYSM. 1 hit.
PS51257. PROKAR_LIPOPROTEIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A gene at 59 minutes on the Escherichia coli chromosome encodes a lipoprotein with unusual amino acid repeat sequences."
    Ichikawa J.K., Li C., Fu J.C., Clarke S.
    J. Bacteriol. 176:1630-1638(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], DIACYLGLYCEROL AT CYS-26, PALMITOYLATION AT CYS-26.
    Strain: MP180.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. "Structure of the 5' upstream region and the regulation of the rpoS gene of Escherichia coli."
    Takayanagi Y., Tanaka K., Takahashi H.
    Mol. Gen. Genet. 243:525-531(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 99-379.
    Strain: K12 / DH1 / ATCC 33849 / DSM 4235 / NCIB 12045.
  5. "LytM-domain factors are required for daughter cell separation and rapid ampicillin-induced lysis in Escherichia coli."
    Uehara T., Dinh T., Bernhardt T.G.
    J. Bacteriol. 191:5094-5107(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE.
    Strain: K12 / MG1655 / TB28.
  6. "Daughter cell separation is controlled by cytokinetic ring-activated cell wall hydrolysis."
    Uehara T., Parzych K.R., Dinh T., Bernhardt T.G.
    EMBO J. 29:1412-1422(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS AN ACTIVATOR.
    Strain: K12 / MG1655 / ATCC 47076.

Entry informationi

Entry nameiNLPD_ECOLI
AccessioniPrimary (citable) accession number: P0ADA3
Secondary accession number(s): P33648, Q2MA87
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 6, 2005
Last sequence update: December 6, 2005
Last modified: March 16, 2016
This is version 91 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.