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Conserved domains on  [gi|1246904178|ref|WP_096488119|]
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MULTISPECIES: lytic transglycosylase domain-containing protein [Hyphomicrobiales]

Protein Classification

lytic transglycosylase domain-containing protein( domain architecture ID 13013948)

lytic transglycosylase domain-containing protein similar to VirB1 protein, one of twelve proteins making up type IV secretion systems (T4SS)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LT_VirB1-like cd16892
VirB1-like subfamily; This subfamily includes VirB1 protein, one of twelve proteins making up ...
 11-152 6.36e-64

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: 195.84  E-value: 6.36e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  11 LAASCGPSVHVDTLAAIARTESGFHTGAINDNTGRRRYLPRSREEAIALATDLIvAKHHSVDLGLMQVNSANLSGLGMTV 90
Cdd:cd16892     1 LAAQCAPGVHPETLAAIVQVESGGNPYAIGVNGGKLSRQPKTKAEAIATARQLI-AAGHNFDVGLGQINSRNLARLGLTV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1246904178  91 ADAFDPCKNVAGAARVLTAAY-RVPAAGQDTQPALLQALSRYNTGHPARGFANGYVAKVQASA 152
Cdd:cd16892    80 EDVFDPCTNLKAGATILTECYaRAKKTGGDGQAALRAALSCYNTGNFTRGFSNGYVQKVVAAA 142
 
Name Accession Description Interval E-value
LT_VirB1-like cd16892
VirB1-like subfamily; This subfamily includes VirB1 protein, one of twelve proteins making up ...
 11-152 6.36e-64

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: 195.84  E-value: 6.36e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  11 LAASCGPSVHVDTLAAIARTESGFHTGAINDNTGRRRYLPRSREEAIALATDLIvAKHHSVDLGLMQVNSANLSGLGMTV 90
Cdd:cd16892     1 LAAQCAPGVHPETLAAIVQVESGGNPYAIGVNGGKLSRQPKTKAEAIATARQLI-AAGHNFDVGLGQINSRNLARLGLTV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1246904178  91 ADAFDPCKNVAGAARVLTAAY-RVPAAGQDTQPALLQALSRYNTGHPARGFANGYVAKVQASA 152
Cdd:cd16892    80 EDVFDPCTNLKAGATILTECYaRAKKTGGDGQAALRAALSCYNTGNFTRGFSNGYVQKVVAAA 142
PRK13864 PRK13864
type IV secretion system lytic transglycosylase VirB1; Provisional
 3-212 3.50e-44

type IV secretion system lytic transglycosylase VirB1; Provisional


Pssm-ID: 237534  Cd Length: 245  Bit Score: 148.85  E-value: 3.50e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178   3 LPLAVFTQLAASCGPSVHVDTLAAIARTESGFHTGAINDNTGRRRYLPRSREEAIALATDLIVAKHhSVDLGLMQVNSAN 82
Cdd:PRK13864   25 LSFAEFNQLARECAPSVAPSTLAAIAKVESRFDPLAVHDNTTGETLHWQNHAQATQSVRHRLEARH-SLDVGLMQINSKN 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  83 LSGLGMTVADAFDPCKNVAGAARVLTAAYRVPAAGQDTQPALLQALSRYNTGHPARGFANGYVAKVQASAEQVVPAIRLS 162
Cdd:PRK13864  104 FSVLGLTPDGALQPCTSLSAAANLLGSRYAGGDTADEKQLALRRAISAYNTGDFTRGFANGYVRKVETAAQQLVPPLTQR 183

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1246904178 163 GEAPGGQEGEQGTaapqlpppppnWDVFGQARYARQYGSSVFGGSRPMPQ 212
Cdd:PRK13864  184 PKDDREKPKSEET-----------WDVWGSYKRRSPEGGAGGSSAPPPAP 222
SLT pfam01464
Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found ...
 12-145 2.16e-08

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: 51.15  E-value: 2.16e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  12 AASCGPSVHVDTLAAIARTESGFhtgaindntgrrryLPRsreeaialatdlivAKHHSVDLGLMQVNSANLSGLGM--- 88
Cdd:pfam01464   3 KAAQKYGVDPSLLLAIAQQESGF--------------NPK--------------AVSKSGAVGLMQIMPSTAKRLGLrvn 54

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1246904178  89 -TVADAFDPCKNVAGAARVLtaAYRVPAAGQDtqpaLLQALSRYNTGHPARGFANGYV 145
Cdd:pfam01464  55 pGVDDLFDPEKNIKAGTKYL--KELYKQYGGD----LWLALAAYNAGPGRVRKWIKNA 106
 
Name Accession Description Interval E-value
LT_VirB1-like cd16892
VirB1-like subfamily; This subfamily includes VirB1 protein, one of twelve proteins making up ...
 11-152 6.36e-64

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: 195.84  E-value: 6.36e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  11 LAASCGPSVHVDTLAAIARTESGFHTGAINDNTGRRRYLPRSREEAIALATDLIvAKHHSVDLGLMQVNSANLSGLGMTV 90
Cdd:cd16892     1 LAAQCAPGVHPETLAAIVQVESGGNPYAIGVNGGKLSRQPKTKAEAIATARQLI-AAGHNFDVGLGQINSRNLARLGLTV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1246904178  91 ADAFDPCKNVAGAARVLTAAY-RVPAAGQDTQPALLQALSRYNTGHPARGFANGYVAKVQASA 152
Cdd:cd16892    80 EDVFDPCTNLKAGATILTECYaRAKKTGGDGQAALRAALSCYNTGNFTRGFSNGYVQKVVAAA 142
PRK13864 PRK13864
type IV secretion system lytic transglycosylase VirB1; Provisional
 3-212 3.50e-44

type IV secretion system lytic transglycosylase VirB1; Provisional


Pssm-ID: 237534  Cd Length: 245  Bit Score: 148.85  E-value: 3.50e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178   3 LPLAVFTQLAASCGPSVHVDTLAAIARTESGFHTGAINDNTGRRRYLPRSREEAIALATDLIVAKHhSVDLGLMQVNSAN 82
Cdd:PRK13864   25 LSFAEFNQLARECAPSVAPSTLAAIAKVESRFDPLAVHDNTTGETLHWQNHAQATQSVRHRLEARH-SLDVGLMQINSKN 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  83 LSGLGMTVADAFDPCKNVAGAARVLTAAYRVPAAGQDTQPALLQALSRYNTGHPARGFANGYVAKVQASAEQVVPAIRLS 162
Cdd:PRK13864  104 FSVLGLTPDGALQPCTSLSAAANLLGSRYAGGDTADEKQLALRRAISAYNTGDFTRGFANGYVRKVETAAQQLVPPLTQR 183

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1246904178 163 GEAPGGQEGEQGTaapqlpppppnWDVFGQARYARQYGSSVFGGSRPMPQ 212
Cdd:PRK13864  184 PKDDREKPKSEET-----------WDVWGSYKRRSPEGGAGGSSAPPPAP 222
LT_IagB-like cd13400
Escherichia coli invasion protein IagB and similar proteins; Lytic transglycosylase-like ...
 19-154 9.11e-15

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: 68.32  E-value: 9.11e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  19 VHVDTLAAIARTESGFHTGAINDNTGRrrylprsreeaialatdlivakhhSVDLGLMQVNSANLSGL----GMTVADAF 94
Cdd:cd13400     3 VPPRLLRAIAKVESGFNPNAINRNKNG------------------------SYDIGLMQINSIWLPELarygITREELLN 58

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  95 DPCKNVAGAARVLtaAYRVPAAGqdtqpALLQALSRYNTGHPARGFAngYVAKVQASAEQ 154
Cdd:cd13400    59 DPCTNIYVGAWIL--ARNIKRYG-----NTWKAVGAYNSGTPKKNDK--YARKVYRIYRR 109
SLT pfam01464
Transglycosylase SLT domain; This family is distantly related to pfam00062. Members are found ...
 12-145 2.16e-08

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: 51.15  E-value: 2.16e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1246904178  12 AASCGPSVHVDTLAAIARTESGFhtgaindntgrrryLPRsreeaialatdlivAKHHSVDLGLMQVNSANLSGLGM--- 88
Cdd:pfam01464   3 KAAQKYGVDPSLLLAIAQQESGF--------------NPK--------------AVSKSGAVGLMQIMPSTAKRLGLrvn 54

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1246904178  89 -TVADAFDPCKNVAGAARVLtaAYRVPAAGQDtqpaLLQALSRYNTGHPARGFANGYV 145
Cdd:pfam01464  55 pGVDDLFDPEKNIKAGTKYL--KELYKQYGGD----LWLALAAYNAGPGRVRKWIKNA 106
 
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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