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Conserved domains on  [gi|1172965204|ref|WP_081026771|]
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transglycosylase SLT domain-containing protein [Pseudomonas amygdali]

Protein Classification

lysozyme family protein( domain architecture ID 63)

lysozyme family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Lyz-like super family cl00222
lysozyme-like domains; This family contains several members, including soluble lytic ...
 38-175 1.18e-10

lysozyme-like domains; This family contains several members, including soluble lytic transglycosylases (SLT), goose egg-white lysozymes (GEWL), hen egg-white lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, chitosanases, and pesticin. Typical members are involved in the hydrolysis of beta-1,4- linked polysaccharides.


The actual alignment was detected with superfamily member cd13400:

Pssm-ID: 469668 [Multi-domain]  Cd Length: 109  Bit Score: 56.00  E-value: 1.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172965204  38 GIPSPVLFSVALQESGMPIRgkllpwpwtlnvagkgyrfanrgaactalliAIHEAGAKRVDAGLGQVNIGWNGD---RF 114
Cdd:cd13400     2 GVPPRLLRAIAKVESGFNPN-------------------------------AINRNKNGSYDIGLMQINSIWLPElarYG 50

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1172965204 115 STPCEAL-DPHKNLAVAAAILKERYAEYGDWTEAAGRYHhpaggGPTERYRKAFSAHLKRVL 175
Cdd:cd13400    51 ITREELLnDPCTNIYVGAWILARNIKRYGNTWKAVGAYN-----SGTPKKNDKYARKVYRIY 107
 
Name Accession Description Interval E-value
LT_IagB-like cd13400
Escherichia coli invasion protein IagB and similar proteins; Lytic transglycosylase-like ...
 38-175 1.18e-10

Escherichia coli invasion protein IagB and similar proteins; Lytic transglycosylase-like protein, similar to Escherichia coli invasion protein IagB. IagB is encoded within a pathogenicity island in Salmonella enterica and has been shown to degrade polymeric peptidoglycan. IagB-like invasion proteins are implicated in the invasion of eukaryotic host cells by bacteria. Lytic transglycosylase (LT) catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine (GlcNAc), as do "goose-type" lysozymes. However, in addition to this, they also make a new glycosidic bond with the C6 hydroxyl group of the same muramic acid residue. Members of this family resemble the soluble and insoluble membrane-bound LTs in bacteria and the LTs in bacteriophage lambda.


Pssm-ID: 381603 [Multi-domain]  Cd Length: 109  Bit Score: 56.00  E-value: 1.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172965204  38 GIPSPVLFSVALQESGMPIRgkllpwpwtlnvagkgyrfanrgaactalliAIHEAGAKRVDAGLGQVNIGWNGD---RF 114
Cdd:cd13400     2 GVPPRLLRAIAKVESGFNPN-------------------------------AINRNKNGSYDIGLMQINSIWLPElarYG 50

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1172965204 115 STPCEAL-DPHKNLAVAAAILKERYAEYGDWTEAAGRYHhpaggGPTERYRKAFSAHLKRVL 175
Cdd:cd13400    51 ITREELLnDPCTNIYVGAWILARNIKRYGNTWKAVGAYN-----SGTPKKNDKYARKVYRIY 107
SLT pfam01464
Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found ...
 33-175 6.44e-06

Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found in phages, type II, type III and type IV secretion systems.


Pssm-ID: 396169 [Multi-domain]  Cd Length: 114  Bit Score: 43.45  E-value: 6.44e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172965204  33 AAYTAGIPSPVLFSVALQESGMPIRgkllpwpwtlnvagkgyrfanrgaactalliAIHEAGAkrvdAGLGQVN---IGW 109
Cdd:pfam01464   4 AAQKYGVDPSLLLAIAQQESGFNPK-------------------------------AVSKSGA----VGLMQIMpstAKR 48

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1172965204 110 NGDRF-STPCEALDPHKNLAVAAAILKERYAEYG-DWTEAAGRYHhpAGGGPTERYRKAFSAHLKRVL 175
Cdd:pfam01464  49 LGLRVnPGVDDLFDPEKNIKAGTKYLKELYKQYGgDLWLALAAYN--AGPGRVRKWIKNAGAKDKKLL 114
 
Name Accession Description Interval E-value
LT_IagB-like cd13400
Escherichia coli invasion protein IagB and similar proteins; Lytic transglycosylase-like ...
 38-175 1.18e-10

Escherichia coli invasion protein IagB and similar proteins; Lytic transglycosylase-like protein, similar to Escherichia coli invasion protein IagB. IagB is encoded within a pathogenicity island in Salmonella enterica and has been shown to degrade polymeric peptidoglycan. IagB-like invasion proteins are implicated in the invasion of eukaryotic host cells by bacteria. Lytic transglycosylase (LT) catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine (GlcNAc), as do "goose-type" lysozymes. However, in addition to this, they also make a new glycosidic bond with the C6 hydroxyl group of the same muramic acid residue. Members of this family resemble the soluble and insoluble membrane-bound LTs in bacteria and the LTs in bacteriophage lambda.


Pssm-ID: 381603 [Multi-domain]  Cd Length: 109  Bit Score: 56.00  E-value: 1.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172965204  38 GIPSPVLFSVALQESGMPIRgkllpwpwtlnvagkgyrfanrgaactalliAIHEAGAKRVDAGLGQVNIGWNGD---RF 114
Cdd:cd13400     2 GVPPRLLRAIAKVESGFNPN-------------------------------AINRNKNGSYDIGLMQINSIWLPElarYG 50

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1172965204 115 STPCEAL-DPHKNLAVAAAILKERYAEYGDWTEAAGRYHhpaggGPTERYRKAFSAHLKRVL 175
Cdd:cd13400    51 ITREELLnDPCTNIYVGAWILARNIKRYGNTWKAVGAYN-----SGTPKKNDKYARKVYRIY 107
LT_VirB1-like cd16892
VirB1-like subfamily; This subfamily includes VirB1 protein, one of twelve proteins making up ...
 92-139 4.16e-06

VirB1-like subfamily; This subfamily includes VirB1 protein, one of twelve proteins making up type IV secretion systems (T4SS). T4SS are macromolecular assemblies generally composed of VirB1-11 and VirD4 proteins, and are used by bacteria to transport material across their membranes. VirB1 acts as a lytic transglycosylase (LT), and is important with respect to piercing the peptidoglycan layer in the periplasm. LTs catalyze the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetyl-D-glucosamine (GlcNAc) as do "goose-type" lysozymes. However, in addition to this, they also make a new glycosidic bond with the C6 hydroxyl group of the same muramic acid residue. Proteins similar to this family include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as the eukaryotic "goose-type" lysozymes (goose egg-white lysozyme; GEWL).


Pssm-ID: 381613 [Multi-domain]  Cd Length: 143  Bit Score: 44.46  E-value: 4.16e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1172965204  92 EAGAKRVDAGLGQVNIGwNGDRFS-TPCEALDPHKNLAVAAAILKERYA 139
Cdd:cd16892    54 IAAGHNFDVGLGQINSR-NLARLGlTVEDVFDPCTNLKAGATILTECYA 101
SLT pfam01464
Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found ...
 33-175 6.44e-06

Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found in phages, type II, type III and type IV secretion systems.


Pssm-ID: 396169 [Multi-domain]  Cd Length: 114  Bit Score: 43.45  E-value: 6.44e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1172965204  33 AAYTAGIPSPVLFSVALQESGMPIRgkllpwpwtlnvagkgyrfanrgaactalliAIHEAGAkrvdAGLGQVN---IGW 109
Cdd:pfam01464   4 AAQKYGVDPSLLLAIAQQESGFNPK-------------------------------AVSKSGA----VGLMQIMpstAKR 48

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1172965204 110 NGDRF-STPCEALDPHKNLAVAAAILKERYAEYG-DWTEAAGRYHhpAGGGPTERYRKAFSAHLKRVL 175
Cdd:pfam01464  49 LGLRVnPGVDDLFDPEKNIKAGTKYLKELYKQYGgDLWLALAAYN--AGPGRVRKWIKNAGAKDKKLL 114
 
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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