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Protein

Lysozyme RrrD

Gene

rrrD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Essential for lysis of bacterial cell wall, by showing cell wall hydrolyzing activity. Exhibits lytic activity against E.coli and S.typhi cell wall substrate.1 Publication

Catalytic activityi

Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei35 – 351Proton donorBy similarity
Active sitei44 – 441NucleophileBy similarity

GO - Molecular functioni

  1. lysozyme activity Source: EcoCyc

GO - Biological processi

  1. cell wall macromolecule catabolic process Source: InterPro
  2. cytolysis by virus of host cell Source: EcoCyc
  3. defense response to bacterium Source: UniProtKB-KW
  4. peptidoglycan catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Antimicrobial, Bacteriolytic enzyme, Glycosidase, Hydrolase

Enzyme and pathway databases

BioCyciEcoCyc:G6310-MONOMER.
ECOL316407:JW0544-MONOMER.
MetaCyc:G6310-MONOMER.

Protein family/group databases

CAZyiGH24. Glycoside Hydrolase Family 24.

Names & Taxonomyi

Protein namesi
Recommended name:
Lysozyme RrrD (EC:3.2.1.17)
Alternative name(s):
Endolysin
Lysis protein
Muramidase
Gene namesi
Name:rrrD
Synonyms:arrD, ybcS
Ordered Locus Names:b0555, JW0544
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13635. rrrD.

Pathology & Biotechi

Disruption phenotypei

Mutants are unable to form wild-type biofilms, which could be due to altered peptidoglycan metabolism.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 165165Lysozyme RrrDPRO_0000218109Add
BLAST

Proteomic databases

PRIDEiP78285.

Expressioni

Gene expression databases

GenevestigatoriP78285.

Interactioni

Protein-protein interaction databases

IntActiP78285. 3 interactions.
STRINGi511145.b0555.

Structurei

3D structure databases

ProteinModelPortaliP78285.
SMRiP78285. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the glycosyl hydrolase 24 family.Curated

Phylogenomic databases

eggNOGiCOG3772.
HOGENOMiHOG000277068.
InParanoidiP78285.
KOiK01185.
OMAiGIPTICE.
OrthoDBiEOG60W7TZ.
PhylomeDBiP78285.

Family and domain databases

Gene3Di1.10.530.40. 1 hit.
InterProiIPR002196. Glyco_hydro_24.
IPR023346. Lysozyme-like_dom.
IPR023347. Lysozyme_dom.
[Graphical view]
PfamiPF00959. Phage_lysozyme. 1 hit.
[Graphical view]
SUPFAMiSSF53955. SSF53955. 1 hit.

Sequencei

Sequence statusi: Complete.

P78285-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPPSLRKAVA AAIGGGAIAI ASVLITGPSG NDGLEGVSYI PYKDIVGVWT
60 70 80 90 100
VCHGHTGKDI MLGKTYTKAE CKALLNKDLA TVARQINPYI KVDIPETTRG
110 120 130 140 150
ALYSFVYNVG AGNFRTSTLL RKINQGDIKG ACDQLRRWTY AGGKQWKGLM
160
TRREIEREVC LWGQQ
Length:165
Mass (Da):17,972
Last modified:February 1, 1997 - v1
Checksum:i370CECD5B419329B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U82598 Genomic DNA. Translation: AAB40751.1.
U00096 Genomic DNA. Translation: AAC73656.1.
AP009048 Genomic DNA. Translation: BAE76330.1.
PIRiA64788.
RefSeqiNP_415087.1. NC_000913.3.
YP_488842.1. NC_007779.1.

Genome annotation databases

EnsemblBacteriaiAAC73656; AAC73656; b0555.
BAE76330; BAE76330; BAE76330.
GeneIDi12930891.
947539.
KEGGiecj:Y75_p0541.
eco:b0555.
PATRICi32116276. VBIEscCol129921_0578.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U82598 Genomic DNA. Translation: AAB40751.1.
U00096 Genomic DNA. Translation: AAC73656.1.
AP009048 Genomic DNA. Translation: BAE76330.1.
PIRiA64788.
RefSeqiNP_415087.1. NC_000913.3.
YP_488842.1. NC_007779.1.

3D structure databases

ProteinModelPortaliP78285.
SMRiP78285. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP78285. 3 interactions.
STRINGi511145.b0555.

Protein family/group databases

CAZyiGH24. Glycoside Hydrolase Family 24.

Proteomic databases

PRIDEiP78285.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73656; AAC73656; b0555.
BAE76330; BAE76330; BAE76330.
GeneIDi12930891.
947539.
KEGGiecj:Y75_p0541.
eco:b0555.
PATRICi32116276. VBIEscCol129921_0578.

Organism-specific databases

EchoBASEiEB3399.
EcoGeneiEG13635. rrrD.

Phylogenomic databases

eggNOGiCOG3772.
HOGENOMiHOG000277068.
InParanoidiP78285.
KOiK01185.
OMAiGIPTICE.
OrthoDBiEOG60W7TZ.
PhylomeDBiP78285.

Enzyme and pathway databases

BioCyciEcoCyc:G6310-MONOMER.
ECOL316407:JW0544-MONOMER.
MetaCyc:G6310-MONOMER.

Miscellaneous databases

PROiP78285.

Gene expression databases

GenevestigatoriP78285.

Family and domain databases

Gene3Di1.10.530.40. 1 hit.
InterProiIPR002196. Glyco_hydro_24.
IPR023346. Lysozyme-like_dom.
IPR023347. Lysozyme_dom.
[Graphical view]
PfamiPF00959. Phage_lysozyme. 1 hit.
[Graphical view]
SUPFAMiSSF53955. SSF53955. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence of minutes 4-25 of Escherichia coli."
    Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W.
    Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  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. "Subclassification and targeted characterization of prophage-encoded two-component cell lysis cassette."
    Srividhya K.V., Krishnaswamy S.
    J. Biosci. 32:979-990(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS A LYSIN.
  5. "Role of DLP12 lysis genes in Escherichia coli biofilm formation."
    Toba F.A., Thompson M.G., Campbell B.R., Junker L.M., Rueggeberg K.G., Hay A.G.
    Microbiology 157:1640-1650(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
    Strain: K12 / MG1655 / ATCC 47076 / PHL626.

Entry informationi

Entry nameiLYSD_ECOLI
AccessioniPrimary (citable) accession number: P78285
Secondary accession number(s): Q2MBM6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: January 7, 2015
This is version 102 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Encoded by the cryptic lambdoid prophage DLP12.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. Glycosyl hydrolases
    Classification of glycosyl hydrolase families and list of entries
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.