NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1017349087|ref|NP_491415|]
View 

LysM domain-containing protein [Caenorhabditis elegans]

Protein Classification

LysM peptidoglycan-binding domain-containing protein( domain architecture ID 11443400)

LysM peptidoglycan-binding domain-containing protein may bind N-acetylglucosamine in carbohydrates such as chitin, chitio-oligosaccharides and peptidoglycan

CATH:  3.10.350.10
Gene Ontology:  GO:0097367
PubMed:  18430080|24652063
SCOP:  4000905

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
33-94 4.94e-10

LysM repeat [Cell wall/membrane/envelope biogenesis];


:

Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 55.10  E-value: 4.94e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1017349087  33 YGTTQSQSSPVTPCSYTIYQVQTDDTLERIALKHNCSVSSLVRANKLwSPSALFMKQFIRIP 94
Cdd:COG1388    94 LSGIARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGL-SSDTIRPGQKLKIP 154
 
Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
33-94 4.94e-10

LysM repeat [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 55.10  E-value: 4.94e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1017349087  33 YGTTQSQSSPVTPCSYTIYQVQTDDTLERIALKHNCSVSSLVRANKLwSPSALFMKQFIRIP 94
Cdd:COG1388    94 LSGIARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGL-SSDTIRPGQKLKIP 154
LysM smart00257
Lysin motif;
50-93 1.88e-09

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 50.52  E-value: 1.88e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1017349087   50 IYQVQTDDTLERIALKHNCSVSSLVRANKLWSPSALFMKQFIRI 93
Cdd:smart00257   1 TYTVKKGDTLSSIARRYGISVSDLLELNNILDPDNLQVGQKLKI 44
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 49-93 2.15e-09

Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain with approximately 40 amino acids, is a widespread protein module involved in binding peptidoglycan in bacteria and chitin in eukaryotes. The domain was originally identified in enzymes that degrade bacterial cell walls, but proteins involved in many other biological functions also contain this domain. It has been reported that the LysM domain functions as a signal for specific plant-bacteria recognition in bacterial pathogenesis. Many of these enzymes are modular and are composed of catalytic units linked to one or several repeats of LysM domains. LysM domains are found in bacteria and eukaryotes.


Pssm-ID: 212030 [Multi-domain]  Cd Length: 45  Bit Score: 50.18  E-value: 2.15e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1017349087  49 TIYQVQTDDTLERIALKHNCSVSSLVRANKLWSPSALFMKQFIRI 93
Cdd:cd00118     1 KTYTVKPGDTLWSIAKKYGVTVEELAAANPLINPDCIYPGQKLKI 45
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 51-94 3.88e-09

LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. The structure of this domain is known.


Pssm-ID: 396179 [Multi-domain]  Cd Length: 43  Bit Score: 49.70  E-value: 3.88e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1017349087  51 YQVQTDDTLERIALKHNCSVSSLVRANKLWSPSaLFMKQFIRIP 94
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGITVEQLAELNGLSSPN-LYVGQKLKIP 43
 
Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
33-94 4.94e-10

LysM repeat [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 55.10  E-value: 4.94e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1017349087  33 YGTTQSQSSPVTPCSYTIYQVQTDDTLERIALKHNCSVSSLVRANKLwSPSALFMKQFIRIP 94
Cdd:COG1388    94 LSGIARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGL-SSDTIRPGQKLKIP 154
LysM smart00257
Lysin motif;
50-93 1.88e-09

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 50.52  E-value: 1.88e-09
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1017349087   50 IYQVQTDDTLERIALKHNCSVSSLVRANKLWSPSALFMKQFIRI 93
Cdd:smart00257   1 TYTVKKGDTLSSIARRYGISVSDLLELNNILDPDNLQVGQKLKI 44
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 49-93 2.15e-09

Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain with approximately 40 amino acids, is a widespread protein module involved in binding peptidoglycan in bacteria and chitin in eukaryotes. The domain was originally identified in enzymes that degrade bacterial cell walls, but proteins involved in many other biological functions also contain this domain. It has been reported that the LysM domain functions as a signal for specific plant-bacteria recognition in bacterial pathogenesis. Many of these enzymes are modular and are composed of catalytic units linked to one or several repeats of LysM domains. LysM domains are found in bacteria and eukaryotes.


Pssm-ID: 212030 [Multi-domain]  Cd Length: 45  Bit Score: 50.18  E-value: 2.15e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1017349087  49 TIYQVQTDDTLERIALKHNCSVSSLVRANKLWSPSALFMKQFIRI 93
Cdd:cd00118     1 KTYTVKPGDTLWSIAKKYGVTVEELAAANPLINPDCIYPGQKLKI 45
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 51-94 3.88e-09

LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function. The structure of this domain is known.


Pssm-ID: 396179 [Multi-domain]  Cd Length: 43  Bit Score: 49.70  E-value: 3.88e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1017349087  51 YQVQTDDTLERIALKHNCSVSSLVRANKLWSPSaLFMKQFIRIP 94
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGITVEQLAELNGLSSPN-LYVGQKLKIP 43
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH