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Conserved domains on  [gi|2774308908|ref|WP_367387680|]
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LysM peptidoglycan-binding domain-containing protein, partial [Latilactobacillus sakei]

Protein Classification

LysM peptidoglycan-binding domain-containing protein( domain architecture ID 11447265)

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:  24652063|18430080
SCOP:  4000905

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 14-80 2.49e-16

Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion transport and metabolism];


:

Pssm-ID: 441258 [Multi-domain]  Cd Length: 163  Bit Score: 69.26  E-value: 2.49e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2774308908  14 STAATAGLLFASNGHADAATNYTVVSGDTLSSISQKFAGNGSLIEKIANANK--IANKNLIYVGETLTI 80
Cdd:COG1652    91 VTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdqIKNPDLIYPGQVLRI 159
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 14-80 2.49e-16

Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion transport and metabolism];


Pssm-ID: 441258 [Multi-domain]  Cd Length: 163  Bit Score: 69.26  E-value: 2.49e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2774308908  14 STAATAGLLFASNGHADAATNYTVVSGDTLSSISQKFAGNGSLIEKIANANK--IANKNLIYVGETLTI 80
Cdd:COG1652    91 VTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdqIKNPDLIYPGQVLRI 159
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 35-80 5.47e-12

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: 55.18  E-value: 5.47e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2774308908 35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNLIYVGETLTI 80
Cdd:cd00118    3 YTVKPGDTLWSIAKKY---GVTVEELAAANPLINPDCIYPGQKLKI 45
LysM smart00257
Lysin motif;
35-80 2.18e-11

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 53.60  E-value: 2.18e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2774308908  35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNLIYVGETLTI 80
Cdd:smart00257  2 YTVKKGDTLSSIARRY---GISVSDLLELNNILDPDNLQVGQKLKI 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 26-80 2.23e-10

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 53.38  E-value: 2.23e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2774308908  26 NGHADAATNYTVVSGDTLSSISQKFAGNGSLIEKIANANK--IANKNLIYVGETLTI 80
Cdd:PRK11198   89 ATPAPESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKpmLKSPDKIYPGQVLRI 145
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 35-80 3.29e-10

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: 50.47  E-value: 3.29e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2774308908 35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNlIYVGETLTI 80
Cdd:pfam01476  1 YTVKKGDTLSSIAKRY---GITVEQLAELNGLSSPN-LYVGQKLKI 42
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 14-80 2.49e-16

Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion transport and metabolism];


Pssm-ID: 441258 [Multi-domain]  Cd Length: 163  Bit Score: 69.26  E-value: 2.49e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2774308908  14 STAATAGLLFASNGHADAATNYTVVSGDTLSSISQKFAGNGSLIEKIANANK--IANKNLIYVGETLTI 80
Cdd:COG1652    91 VTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdqIKNPDLIYPGQVLRI 159
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 35-80 5.47e-12

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: 55.18  E-value: 5.47e-12
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2774308908 35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNLIYVGETLTI 80
Cdd:cd00118    3 YTVKPGDTLWSIAKKY---GVTVEELAAANPLINPDCIYPGQKLKI 45
LysM smart00257
Lysin motif;
35-80 2.18e-11

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 53.60  E-value: 2.18e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2774308908  35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNLIYVGETLTI 80
Cdd:smart00257  2 YTVKKGDTLSSIARRY---GISVSDLLELNNILDPDNLQVGQKLKI 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 26-80 2.23e-10

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 53.38  E-value: 2.23e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2774308908  26 NGHADAATNYTVVSGDTLSSISQKFAGNGSLIEKIANANK--IANKNLIYVGETLTI 80
Cdd:PRK11198   89 ATPAPESQFYTVKSGDTLSAIAKKVYGNANKYNKIFEANKpmLKSPDKIYPGQVLRI 145
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 35-80 3.29e-10

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: 50.47  E-value: 3.29e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 2774308908 35 YTVVSGDTLSSISQKFagnGSLIEKIANANKIANKNlIYVGETLTI 80
Cdd:pfam01476  1 YTVKKGDTLSSIAKRY---GITVEQLAELNGLSSPN-LYVGQKLKI 42
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
29-80 1.31e-08

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


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 49.32  E-value: 1.31e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2774308908  29 ADAATNYTVVSGDTLSSISQKFagnGSLIEKIANANKIANkNLIYVGETLTI 80
Cdd:COG1388   106 APSPVTYTVKKGDTLWSIARRY---GVSVEELKRWNGLSS-DTIRPGQKLKI 153
PRK11649 PRK11649
putative peptidase; Provisional
 35-88 2.28e-03

putative peptidase; Provisional


Pssm-ID: 236946 [Multi-domain]  Cd Length: 439  Bit Score: 35.41  E-value: 2.28e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2774308908  35 YTVVSGDTLSSISQKFAGNGSLIEKIANANKiANKNLiYVGE----TLTIDEETQTVT 88
Cdd:PRK11649   98 YVVSTGDTLSSILNQYGIDMSDISQLAAQDK-ELRNL-KIGQqlswTLTADGDLQRLT 153
OapA COG3061
Cell division protein YtfB/OapA (opacity-associated protein A) [Cell cycle control, cell ...
 34-81 2.59e-03

Cell division protein YtfB/OapA (opacity-associated protein A) [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 442295 [Multi-domain]  Cd Length: 425  Bit Score: 35.41  E-value: 2.59e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2774308908  34 NYTVVSGDTLSSIsqkFAGNG---SLIEKIANANKiANKNL--IYVGETLTID 81
Cdd:COG3061    71 EYTVQSGDTLSQI---FRRLGlsaSDLYALLAAEG-DAKPLsrLKPGQELRFQ 119
 
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.
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