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Conserved domains on  [gi|518451001|ref|WP_019621208|]
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LysM peptidoglycan-binding domain-containing protein [Amphritea japonica]

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 ...
 13-87 4.48e-23

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: 93.92  E-value: 4.48e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 518451001  13 AMCIALVMPVQAEVRKDTLALQDNHPKTYVVVKGDTLWDISGMFLKSPWKWPQLWGYNQ-QIDDPHWIYPGDVLTL 87
Cdd:COG1652   84 AAKLSPAVTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdQIKNPDLIYPGQVLRI 159
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 13-87 4.48e-23

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: 93.92  E-value: 4.48e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 518451001  13 AMCIALVMPVQAEVRKDTLALQDNHPKTYVVVKGDTLWDISGMFLKSPWKWPQLWGYNQ-QIDDPHWIYPGDVLTL 87
Cdd:COG1652   84 AAKLSPAVTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdQIKNPDLIYPGQVLRI 159
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 39-87 8.11e-07

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: 45.17  E-value: 8.11e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 518451001  39 KTYVVVKGDTLWDISGMFLKSpwkWPQLWGYNqQIDDPHWIYPGDVLTL 87
Cdd:cd00118    1 KTYTVKPGDTLWSIAKKYGVT---VEELAAAN-PLINPDCIYPGQKLKI 45
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 41-88 1.71e-04

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: 38.53  E-value: 1.71e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 518451001   41 YVVVKGDTLWDISGMFLKSpwkWPQLWGYNqQIDDPHwIYPGDVLTLK 88
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGIT---VEQLAELN-GLSSPN-LYVGQKLKIP 43
LysM smart00257
Lysin motif;
40-87 9.64e-04

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 36.65  E-value: 9.64e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 518451001    40 TYVVVKGDTLWDISGMFlKSPWKwpQLWGYNQQIDDPHwIYPGDVLTL 87
Cdd:smart00257   1 TYTVKKGDTLSSIARRY-GISVS--DLLELNNILDPDN-LQVGQKLKI 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 41-85 1.41e-03

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 38.74  E-value: 1.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 518451001  41 YVVVKGDTLWDISGMFLKSPWKWPQLWGYNQQ-IDDPHWIYPGDVL 85
Cdd:PRK11198  98 YTVKSGDTLSAIAKKVYGNANKYNKIFEANKPmLKSPDKIYPGQVL 143
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 13-87 4.48e-23

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: 93.92  E-value: 4.48e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 518451001  13 AMCIALVMPVQAEVRKDTLALQDNHPKTYVVVKGDTLWDISGMFLKSPWKWPQLWGYNQ-QIDDPHWIYPGDVLTL 87
Cdd:COG1652   84 AAKLSPAVTVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANRdQIKNPDLIYPGQVLRI 159
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 39-87 8.11e-07

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: 45.17  E-value: 8.11e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 518451001  39 KTYVVVKGDTLWDISGMFLKSpwkWPQLWGYNqQIDDPHWIYPGDVLTL 87
Cdd:cd00118    1 KTYTVKPGDTLWSIAKKYGVT---VEELAAAN-PLINPDCIYPGQKLKI 45
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 41-88 1.71e-04

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: 38.53  E-value: 1.71e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 518451001   41 YVVVKGDTLWDISGMFLKSpwkWPQLWGYNqQIDDPHwIYPGDVLTLK 88
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGIT---VEQLAELN-GLSSPN-LYVGQKLKIP 43
LysM smart00257
Lysin motif;
40-87 9.64e-04

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 36.65  E-value: 9.64e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 518451001    40 TYVVVKGDTLWDISGMFlKSPWKwpQLWGYNQQIDDPHwIYPGDVLTL 87
Cdd:smart00257   1 TYTVKKGDTLSSIARRY-GISVS--DLLELNNILDPDN-LQVGQKLKI 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 41-85 1.41e-03

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 38.74  E-value: 1.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 518451001  41 YVVVKGDTLWDISGMFLKSPWKWPQLWGYNQQ-IDDPHWIYPGDVL 85
Cdd:PRK11198  98 YTVKSGDTLSAIAKKVYGNANKYNKIFEANKPmLKSPDKIYPGQVL 143
 
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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