Peptidoglycan-binding lysin domain-containing protein [Acetivibrio thermocellus DSM 2360]
List of domain hits
Name | Accession | Description | Interval | E-value | |||
ErfK | COG1376 | Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; |
127-229 | 4.45e-28 | |||
Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; : Pssm-ID: 440986 [Multi-domain] Cd Length: 121 Bit Score: 103.02 E-value: 4.45e-28
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LysM | smart00257 | Lysin motif; |
16-58 | 1.31e-14 | |||
Lysin motif; : Pssm-ID: 197609 [Multi-domain] Cd Length: 44 Bit Score: 65.54 E-value: 1.31e-14
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LysM | pfam01476 | LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ... |
74-117 | 1.28e-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: 52.01 E-value: 1.28e-09
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Name | Accession | Description | Interval | E-value | |||
ErfK | COG1376 | Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; |
127-229 | 4.45e-28 | |||
Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; Pssm-ID: 440986 [Multi-domain] Cd Length: 121 Bit Score: 103.02 E-value: 4.45e-28
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YkuD_like | cd16913 | L,D-transpeptidases/carboxypeptidases similar to Bacillus YkuD; Members of the YkuD-like ... |
127-229 | 5.14e-20 | |||
L,D-transpeptidases/carboxypeptidases similar to Bacillus YkuD; Members of the YkuD-like family of proteins are found in a range of bacteria. The best studied member Bacillus YkuD has been shown to act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking. Another member Helicobacter pylori Csd6 functions as an L,D-carboxypeptidase and regulates helical cell shape and motility. The conserved region contains a conserved histidine and cysteine, with the cysteine thought to be an active site residue. Pssm-ID: 341130 [Multi-domain] Cd Length: 121 Bit Score: 81.97 E-value: 5.14e-20
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LysM | smart00257 | Lysin motif; |
16-58 | 1.31e-14 | |||
Lysin motif; Pssm-ID: 197609 [Multi-domain] Cd Length: 44 Bit Score: 65.54 E-value: 1.31e-14
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LysM | cd00118 | Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ... |
16-58 | 7.16e-14 | |||
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: 63.66 E-value: 7.16e-14
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LysM | pfam01476 | LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ... |
16-59 | 1.09e-13 | |||
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: 63.18 E-value: 1.09e-13
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LysM | COG1388 | LysM repeat [Cell wall/membrane/envelope biogenesis]; |
5-59 | 2.11e-13 | |||
LysM repeat [Cell wall/membrane/envelope biogenesis]; Pssm-ID: 440998 [Multi-domain] Cd Length: 156 Bit Score: 65.50 E-value: 2.11e-13
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LysM | pfam01476 | LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ... |
74-117 | 1.28e-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: 52.01 E-value: 1.28e-09
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YkuD | pfam03734 | L,D-transpeptidase catalytic domain; This family of proteins are found in a range of bacteria. ... |
122-229 | 2.85e-09 | |||
L,D-transpeptidase catalytic domain; This family of proteins are found in a range of bacteria. It has been shown that this domain can act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking. This gives bacteria resistance to beta-lactam antibiotics that inhibit PBPs which usually carry out the cross-linking reaction. The conserved region contains a conserved histidine and cysteine, with the cysteine thought to be an active site residue. Several members of this family contain peptidoglycan binding domains. The molecular structure of YkuD protein shows this domain has a novel tertiary fold consisting of a beta-sandwich with two mixed sheets, one containing five strands and the other, six strands. The two beta-sheets form a cradle capped by an alpha-helix. This family was formerly called the ErfK/YbiS/YcfS/YnhG family, but is now named after the first protein of known structure. Pssm-ID: 461031 [Multi-domain] Cd Length: 89 Bit Score: 52.35 E-value: 2.85e-09
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LysM | smart00257 | Lysin motif; |
73-116 | 7.84e-09 | |||
Lysin motif; Pssm-ID: 197609 [Multi-domain] Cd Length: 44 Bit Score: 50.14 E-value: 7.84e-09
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LysM | cd00118 | Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ... |
73-116 | 1.37e-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: 46.71 E-value: 1.37e-07
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mltD | PRK10783 | membrane-bound lytic murein transglycosylase D; Provisional |
10-110 | 2.48e-06 | |||
membrane-bound lytic murein transglycosylase D; Provisional Pssm-ID: 182727 [Multi-domain] Cd Length: 456 Bit Score: 47.42 E-value: 2.48e-06
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spore_safA | TIGR02899 | spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found ... |
18-59 | 3.47e-05 | |||
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: 40.17 E-value: 3.47e-05
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nlpD | PRK10871 | murein hydrolase activator NlpD; |
5-56 | 6.82e-04 | |||
murein hydrolase activator NlpD; Pssm-ID: 236782 [Multi-domain] Cd Length: 319 Bit Score: 39.82 E-value: 6.82e-04
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Name | Accession | Description | Interval | E-value | |||
ErfK | COG1376 | Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; |
127-229 | 4.45e-28 | |||
Lipoprotein-anchoring transpeptidase ErfK/SrfK [Cell wall/membrane/envelope biogenesis]; Pssm-ID: 440986 [Multi-domain] Cd Length: 121 Bit Score: 103.02 E-value: 4.45e-28
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YkuD_like | cd16913 | L,D-transpeptidases/carboxypeptidases similar to Bacillus YkuD; Members of the YkuD-like ... |
127-229 | 5.14e-20 | |||
L,D-transpeptidases/carboxypeptidases similar to Bacillus YkuD; Members of the YkuD-like family of proteins are found in a range of bacteria. The best studied member Bacillus YkuD has been shown to act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking. Another member Helicobacter pylori Csd6 functions as an L,D-carboxypeptidase and regulates helical cell shape and motility. The conserved region contains a conserved histidine and cysteine, with the cysteine thought to be an active site residue. Pssm-ID: 341130 [Multi-domain] Cd Length: 121 Bit Score: 81.97 E-value: 5.14e-20
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LysM | smart00257 | Lysin motif; |
16-58 | 1.31e-14 | |||
Lysin motif; Pssm-ID: 197609 [Multi-domain] Cd Length: 44 Bit Score: 65.54 E-value: 1.31e-14
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LysM | cd00118 | Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ... |
16-58 | 7.16e-14 | |||
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: 63.66 E-value: 7.16e-14
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LysM | pfam01476 | LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ... |
16-59 | 1.09e-13 | |||
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: 63.18 E-value: 1.09e-13
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LysM | COG1388 | LysM repeat [Cell wall/membrane/envelope biogenesis]; |
5-59 | 2.11e-13 | |||
LysM repeat [Cell wall/membrane/envelope biogenesis]; Pssm-ID: 440998 [Multi-domain] Cd Length: 156 Bit Score: 65.50 E-value: 2.11e-13
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LysM | pfam01476 | LysM domain; The LysM (lysin motif) domain is about 40 residues long. It is found in a variety ... |
74-117 | 1.28e-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: 52.01 E-value: 1.28e-09
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YkuD | pfam03734 | L,D-transpeptidase catalytic domain; This family of proteins are found in a range of bacteria. ... |
122-229 | 2.85e-09 | |||
L,D-transpeptidase catalytic domain; This family of proteins are found in a range of bacteria. It has been shown that this domain can act as an L,D-transpeptidase that gives rise to an alternative pathway for peptidoglycan cross-linking. This gives bacteria resistance to beta-lactam antibiotics that inhibit PBPs which usually carry out the cross-linking reaction. The conserved region contains a conserved histidine and cysteine, with the cysteine thought to be an active site residue. Several members of this family contain peptidoglycan binding domains. The molecular structure of YkuD protein shows this domain has a novel tertiary fold consisting of a beta-sandwich with two mixed sheets, one containing five strands and the other, six strands. The two beta-sheets form a cradle capped by an alpha-helix. This family was formerly called the ErfK/YbiS/YcfS/YnhG family, but is now named after the first protein of known structure. Pssm-ID: 461031 [Multi-domain] Cd Length: 89 Bit Score: 52.35 E-value: 2.85e-09
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LysM | smart00257 | Lysin motif; |
73-116 | 7.84e-09 | |||
Lysin motif; Pssm-ID: 197609 [Multi-domain] Cd Length: 44 Bit Score: 50.14 E-value: 7.84e-09
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LysM | COG1388 | LysM repeat [Cell wall/membrane/envelope biogenesis]; |
10-119 | 1.58e-08 | |||
LysM repeat [Cell wall/membrane/envelope biogenesis]; Pssm-ID: 440998 [Multi-domain] Cd Length: 156 Bit Score: 52.40 E-value: 1.58e-08
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LysM | cd00118 | Lysin Motif is a small domain involved in binding peptidoglycan; LysM, a small globular domain ... |
73-116 | 1.37e-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: 46.71 E-value: 1.37e-07
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XkdP | COG1652 | Cytoplasmic potassium-binding protein Kbp/XkdP/YgaU, contains LysM domain [Inorganic ion ... |
10-59 | 7.39e-07 | |||
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: 47.69 E-value: 7.39e-07
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mltD | PRK10783 | membrane-bound lytic murein transglycosylase D; Provisional |
10-110 | 2.48e-06 | |||
membrane-bound lytic murein transglycosylase D; Provisional Pssm-ID: 182727 [Multi-domain] Cd Length: 456 Bit Score: 47.42 E-value: 2.48e-06
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spore_safA | TIGR02899 | spore coat assembly protein SafA; SafA (YrbB) (SafA) of Bacillus subtilis is a protein found ... |
18-59 | 3.47e-05 | |||
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: 40.17 E-value: 3.47e-05
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nlpD | PRK10871 | murein hydrolase activator NlpD; |
5-56 | 6.82e-04 | |||
murein hydrolase activator NlpD; Pssm-ID: 236782 [Multi-domain] Cd Length: 319 Bit Score: 39.82 E-value: 6.82e-04
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PRK06132 | PRK06132 | hypothetical protein; Provisional |
117-170 | 9.65e-04 | |||
hypothetical protein; Provisional Pssm-ID: 235709 [Multi-domain] Cd Length: 359 Bit Score: 39.66 E-value: 9.65e-04
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OapA | COG3061 | Cell division protein YtfB/OapA (opacity-associated protein A) [Cell cycle control, cell ... |
16-56 | 1.52e-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: 39.26 E-value: 1.52e-03
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Blast search parameters | ||||
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