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Conserved domains on  [gi|1125458368|gb|OLD83445|]
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hypothetical protein AUF67_00945 [Acidobacteria bacterium 13_1_20CM_58_21]

Protein Classification

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

LysM peptidoglycan-binding domain-containing protein similar to Treponema pallidum treponemal membrane protein B (TmpB), which may serve as a porin or transport protein for large molecules

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 ...
 137-266 1.70e-10

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: 58.86  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125458368 137 DAVLASPKPPVMPLRPPVSTPAAPKFVPYQPPVKRSPFERPKVFMPASPRTWPSRPPGNRVAPREPAAPIAPAGPAGwHV 216
Cdd:COG1652    33 LAVVAGLGAAVGAGGALAAALPLAAGLAAAVAAAAAAAVLIAPVAVMRAGAAAKLSPAVTVAEEAAAPSAELAPDAP-KT 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 217 VTVKPGDSLWKLAQQNLGKGPRWRDLLALN-PRIVDANHIAAGSQIYLPAA 266
Cdd:COG1652   112 YTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 256-325 5.81e-10

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: 57.32  E-value: 5.81e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 256 AAGSQIYLPAAVSSVRTTSRIMVRRGETLTSIAQTQFGHAAYWSCIAHAN-PAIQDANRIYQGQLLSLPAA 325
Cdd:COG1652    92 TVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 137-266 1.70e-10

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: 58.86  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125458368 137 DAVLASPKPPVMPLRPPVSTPAAPKFVPYQPPVKRSPFERPKVFMPASPRTWPSRPPGNRVAPREPAAPIAPAGPAGwHV 216
Cdd:COG1652    33 LAVVAGLGAAVGAGGALAAALPLAAGLAAAVAAAAAAAVLIAPVAVMRAGAAAKLSPAVTVAEEAAAPSAELAPDAP-KT 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 217 VTVKPGDSLWKLAQQNLGKGPRWRDLLALN-PRIVDANHIAAGSQIYLPAA 266
Cdd:COG1652   112 YTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 256-325 5.81e-10

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: 57.32  E-value: 5.81e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 256 AAGSQIYLPAAVSSVRTTSRIMVRRGETLTSIAQTQFGHAAYWSCIAHAN-PAIQDANRIYQGQLLSLPAA 325
Cdd:COG1652    92 TVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 216-263 2.55e-08

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: 49.41  E-value: 2.55e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 216 VVTVKPGDSLWKLAQQNlgkGPRWRDLLALNPrIVDANHIAAGSQIYL 263
Cdd:cd00118     2 TYTVKPGDTLWSIAKKY---GVTVEELAAANP-LINPDCIYPGQKLKI 45
LysM smart00257
Lysin motif;
218-261 2.37e-07

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 46.67  E-value: 2.37e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1125458368  218 TVKPGDSLWKLAQQNlgkGPRWRDLLALNPrIVDANHIAAGSQI 261
Cdd:smart00257   3 TVKKGDTLSSIARRY---GISVSDLLELNN-ILDPDNLQVGQKL 42
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 278-324 1.25e-05

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 44.52  E-value: 1.25e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 278 VRRGETLTSIAQTQFGHAAYWSCIAHAN-PAIQDANRIYQGQLLSLPA 324
Cdd:PRK11198  100 VKSGDTLSAIAKKVYGNANKYNKIFEANkPMLKSPDKIYPGQVLRIPE 147
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 217-264 9.05e-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: 39.30  E-value: 9.05e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 217 VTVKPGDSLWKLAQQNlgkGPRWRDLLALNpRIvDANHIAAGSQIYLP 264
Cdd:pfam01476   1 YTVKKGDTLSSIAKRY---GITVEQLAELN-GL-SSPNLYVGQKLKIP 43
spore_safA TIGR02899
spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found ...
 219-265 3.53e-04

spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found at the interface of the spore cortex and spore coat, and is dependent on SpoVID for its localization. This model is based on the N-terminal LysM (lysin motif) domain (see pfamAM model pfam01476) of SafA and, from several other spore-forming species, the protein with the most similar N-terminal region. However, this set of proteins differs greatly in C-terminal of the LysM domaim; blocks of 12-residue and 13-residue repeats are found in the Bacillus cereus group, tandem LysM domains in Thermoanaerobacter tengcongensis MB4, etc. in which one of which is found in most examples of endospore-forming bacteria. [Cellular processes, Sporulation and germination]


Pssm-ID: 131945 [Multi-domain]  Cd Length: 44  Bit Score: 37.85  E-value: 3.53e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1125458368 219 VKPGDSLWKLAQQNlgkGPRWRDLLALNPRIVDANHIAAGSQIYLPA 265
Cdd:TIGR02899   1 VQKGDTLWKIAKKY---GVDFDELIQANPQLSNPNLIYPGMKIKIPS 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 217-253 4.78e-04

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 39.90  E-value: 4.78e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1125458368 217 VTVKPGDSLWKLAQQNLGKGprwrdllALNPRIVDAN 253
Cdd:PRK11198   98 YTVKSGDTLSAIAKKVYGNA-------NKYNKIFEAN 127
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 278-322 1.13e-03

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: 36.31  E-value: 1.13e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1125458368 278 VRRGETLTSIAQtQFGHaaYWSCIAHANPaIQDANRIYQGQLLSL 322
Cdd:cd00118     5 VKPGDTLWSIAK-KYGV--TVEELAAANP-LINPDCIYPGQKLKI 45
 
Name Accession Description Interval E-value
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 137-266 1.70e-10

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: 58.86  E-value: 1.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125458368 137 DAVLASPKPPVMPLRPPVSTPAAPKFVPYQPPVKRSPFERPKVFMPASPRTWPSRPPGNRVAPREPAAPIAPAGPAGwHV 216
Cdd:COG1652    33 LAVVAGLGAAVGAGGALAAALPLAAGLAAAVAAAAAAAVLIAPVAVMRAGAAAKLSPAVTVAEEAAAPSAELAPDAP-KT 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 217 VTVKPGDSLWKLAQQNLGKGPRWRDLLALN-PRIVDANHIAAGSQIYLPAA 266
Cdd:COG1652   112 YTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
XkdP COG1652
Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ...
 256-325 5.81e-10

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: 57.32  E-value: 5.81e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1125458368 256 AAGSQIYLPAAVSSVRTTSRIMVRRGETLTSIAQTQFGHAAYWSCIAHAN-PAIQDANRIYQGQLLSLPAA 325
Cdd:COG1652    92 TVAEEAAAPSAELAPDAPKTYTVKPGDTLWGIAKRFYGDPARWPEIAEANrDQIKNPDLIYPGQVLRIPAL 162
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 216-263 2.55e-08

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: 49.41  E-value: 2.55e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 216 VVTVKPGDSLWKLAQQNlgkGPRWRDLLALNPrIVDANHIAAGSQIYL 263
Cdd:cd00118     2 TYTVKPGDTLWSIAKKY---GVTVEELAAANP-LINPDCIYPGQKLKI 45
LysM smart00257
Lysin motif;
218-261 2.37e-07

Lysin motif;


Pssm-ID: 197609 [Multi-domain]  Cd Length: 44  Bit Score: 46.67  E-value: 2.37e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....
gi 1125458368  218 TVKPGDSLWKLAQQNlgkGPRWRDLLALNPrIVDANHIAAGSQI 261
Cdd:smart00257   3 TVKKGDTLSSIARRY---GISVSDLLELNN-ILDPDNLQVGQKL 42
LysM COG1388
LysM repeat [Cell wall/membrane/envelope biogenesis];
149-266 1.05e-05

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


Pssm-ID: 440998 [Multi-domain]  Cd Length: 156  Bit Score: 45.08  E-value: 1.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1125458368 149 PLRPPVSTPAAPKFVPYQPPVKRSPFERPKVFMPASPRTWPSRPPGNRVAPREPAAPIAPAGPAGWHVVTVKPGDSLWKL 228
Cdd:COG1388    44 AGLSLAAALNGEALLLLLPAAAAAAKAALAAAPEAAAAAAARYTVKSGDTLSGIARRYGAAAAPSPVTYTVKKGDTLWSI 123

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1125458368 229 AQQNlgkGPRWRDLLALNPriVDANHIAAGSQIYLPAA 266
Cdd:COG1388   124 ARRY---GVSVEELKRWNG--LSSDTIRPGQKLKIPAS 156
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 278-324 1.25e-05

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 44.52  E-value: 1.25e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 278 VRRGETLTSIAQTQFGHAAYWSCIAHAN-PAIQDANRIYQGQLLSLPA 324
Cdd:PRK11198  100 VKSGDTLSAIAKKVYGNANKYNKIFEANkPMLKSPDKIYPGQVLRIPE 147
LysM pfam01476
LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ...
 217-264 9.05e-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: 39.30  E-value: 9.05e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1125458368 217 VTVKPGDSLWKLAQQNlgkGPRWRDLLALNpRIvDANHIAAGSQIYLP 264
Cdd:pfam01476   1 YTVKKGDTLSSIAKRY---GITVEQLAELN-GL-SSPNLYVGQKLKIP 43
spore_safA TIGR02899
spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found ...
 219-265 3.53e-04

spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found at the interface of the spore cortex and spore coat, and is dependent on SpoVID for its localization. This model is based on the N-terminal LysM (lysin motif) domain (see pfamAM model pfam01476) of SafA and, from several other spore-forming species, the protein with the most similar N-terminal region. However, this set of proteins differs greatly in C-terminal of the LysM domaim; blocks of 12-residue and 13-residue repeats are found in the Bacillus cereus group, tandem LysM domains in Thermoanaerobacter tengcongensis MB4, etc. in which one of which is found in most examples of endospore-forming bacteria. [Cellular processes, Sporulation and germination]


Pssm-ID: 131945 [Multi-domain]  Cd Length: 44  Bit Score: 37.85  E-value: 3.53e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1125458368 219 VKPGDSLWKLAQQNlgkGPRWRDLLALNPRIVDANHIAAGSQIYLPA 265
Cdd:TIGR02899   1 VQKGDTLWKIAKKY---GVDFDELIQANPQLSNPNLIYPGMKIKIPS 44
PRK11198 PRK11198
LysM domain/BON superfamily protein; Provisional
 217-253 4.78e-04

LysM domain/BON superfamily protein; Provisional


Pssm-ID: 236880 [Multi-domain]  Cd Length: 147  Bit Score: 39.90  E-value: 4.78e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1125458368 217 VTVKPGDSLWKLAQQNLGKGprwrdllALNPRIVDAN 253
Cdd:PRK11198   98 YTVKSGDTLSAIAKKVYGNA-------NKYNKIFEAN 127
LysM cd00118
Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ...
 278-322 1.13e-03

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: 36.31  E-value: 1.13e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1125458368 278 VRRGETLTSIAQtQFGHaaYWSCIAHANPaIQDANRIYQGQLLSL 322
Cdd:cd00118     5 VKPGDTLWSIAK-KYGV--TVEELAAANP-LINPDCIYPGQKLKI 45
 
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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