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Conserved domains on  [gi|2080960486|ref|XP_042873897|]
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lysM and putative peptidoglycan-binding domain-containing protein 2-like [Penaeus japonicus]

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

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List of domain hits

 Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
24-68 2.02e-07

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


:

Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 49.32  E-value: 2.02e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2080960486  24 STTVNMKRPENIIKHRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:COG1388    98 ARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGLSS 142
 
Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
24-68 2.02e-07

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


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 49.32  E-value: 2.02e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2080960486  24 STTVNMKRPENIIKHRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:COG1388    98 ARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGLSS 142
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 38-68 5.34e-06

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: 42.47  E-value: 5.34e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2080960486  38 HRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:cd00118     3 YTVKPGDTLWSIAKKYGVTVEELAAANPLIN 33
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 38-68 1.71e-05

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: 40.84  E-value: 1.71e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2080960486  38 HRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGITVEQLAELNGLSS 31
LysM smart00257
Lysin motif;
37-68 7.07e-05

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 39.35  E-value: 7.07e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2080960486   37 KHRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:smart00257   1 TYTVKKGDTLSSIARRYGISVSDLLELNNILD 32
 
Name Accession Description Interval E-value
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
24-68 2.02e-07

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


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 49.32  E-value: 2.02e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2080960486  24 STTVNMKRPENIIKHRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:COG1388    98 ARRYGAAAAPSPVTYTVKKGDTLWSIARRYGVSVEELKRWNGLSS 142
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 38-68 5.34e-06

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: 42.47  E-value: 5.34e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2080960486  38 HRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:cd00118     3 YTVKPGDTLWSIAKKYGVTVEELAAANPLIN 33
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 38-68 1.71e-05

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: 40.84  E-value: 1.71e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2080960486  38 HRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:pfam01476   1 YTVKKGDTLSSIAKRYGITVEQLAELNGLSS 31
LysM smart00257
Lysin motif;
37-68 7.07e-05

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 39.35  E-value: 7.07e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2080960486   37 KHRVSKQDTLQGIALRYGVTMESLKQHNKLWS 68
Cdd:smart00257   1 TYTVKKGDTLSSIARRYGISVSDLLELNNILD 32
 
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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