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Conserved domains on  [gi|2053256436|gb|QWR00344|]
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peptidase M56 (plasmid) [Clostridioides difficile]

Protein Classification

M56 family metallopeptidase( domain architecture ID 1009010)

M56 family metallopeptidase that includes transmembrane proteins BlaR1 and MecR1, consisting of four transmembrane helices, a cytoplasmic zinc protease domain, and the soluble C-terminal extracellular sensor domain

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Peptidase_M56 super family cl29776
BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which ...
 10-267 4.87e-45

BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription. homologs to this peptidase domain, which corresponds to Merops family M56, are also found in a number of other bacterial genome sequences.


The actual alignment was detected with superfamily member pfam05569:

Pssm-ID: 428523  Cd Length: 296  Bit Score: 155.32  E-value: 4.87e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  10 LRTSITSSLVICFLLLLRTTIFRIFNKGFNYYIWLIVIVRLLFPFSYFtYTISDSKF-------------QYKPILNEVD 76
Cdd:pfam05569   4 LRASIAAAAAVLVVLLLRRPLRRYLGAIWAYALWLIVPLALLAPFIPE-SALSNFTTsaifmarskapinSTAPKVIDDQ 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  77 YSNT---------------VLIIYLTIVILLAIYRFIKYLKFKSLVIDLSYDIENLEINNLYNNLLKELNIEKHIKLKYT 141
Cdd:pfam05569  83 ASPLatpfpvvawstilkiLLLLWIVGALILLLYMIAAYLVFRQRRVRRLGSLRAHELDDILKEAKEDMGIKRPITISLS 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 142 YEINTPSFFGLFDNYILLPP---HNYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELH 218
Cdd:pfam05569 163 SNIDSPAVLGLWKPRIVLPAdfdTRLSGEEIDYILAHELSHLKRGDLIINLLVAVLQCLHWFNPLVHLAFRKIRIDQELA 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2053256436 219 CDEVVLKGCSLENIKSYANTILDSIERSSRDSNNYT-TGLHR-KSNFEKRV 267
Cdd:pfam05569 243 CDAAVLARLHPHERKEYGRTLLKLLAGPSNHIVPVAcVWLAGaKSALKERI 293
 
Name Accession Description Interval E-value
Peptidase_M56 pfam05569
BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which ...
 10-267 4.87e-45

BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription. homologs to this peptidase domain, which corresponds to Merops family M56, are also found in a number of other bacterial genome sequences.


Pssm-ID: 428523  Cd Length: 296  Bit Score: 155.32  E-value: 4.87e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  10 LRTSITSSLVICFLLLLRTTIFRIFNKGFNYYIWLIVIVRLLFPFSYFtYTISDSKF-------------QYKPILNEVD 76
Cdd:pfam05569   4 LRASIAAAAAVLVVLLLRRPLRRYLGAIWAYALWLIVPLALLAPFIPE-SALSNFTTsaifmarskapinSTAPKVIDDQ 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  77 YSNT---------------VLIIYLTIVILLAIYRFIKYLKFKSLVIDLSYDIENLEINNLYNNLLKELNIEKHIKLKYT 141
Cdd:pfam05569  83 ASPLatpfpvvawstilkiLLLLWIVGALILLLYMIAAYLVFRQRRVRRLGSLRAHELDDILKEAKEDMGIKRPITISLS 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 142 YEINTPSFFGLFDNYILLPP---HNYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELH 218
Cdd:pfam05569 163 SNIDSPAVLGLWKPRIVLPAdfdTRLSGEEIDYILAHELSHLKRGDLIINLLVAVLQCLHWFNPLVHLAFRKIRIDQELA 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2053256436 219 CDEVVLKGCSLENIKSYANTILDSIERSSRDSNNYT-TGLHR-KSNFEKRV 267
Cdd:pfam05569 243 CDAAVLARLHPHERKEYGRTLLKLLAGPSNHIVPVAcVWLAGaKSALKERI 293
MecR1 COG4219
Signal transducer regulating beta-lactamase production, contains metallopeptidase domain ...
 85-277 2.46e-41

Signal transducer regulating beta-lactamase production, contains metallopeptidase domain [Signal transduction mechanisms];


Pssm-ID: 443363 [Multi-domain]  Cd Length: 337  Bit Score: 146.73  E-value: 2.46e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  85 YLTIVILLAIYRFIKYLKFKSLVIDLSYdIENLEINNLYNNLLKELNIEKHIKLKYTYEINTPSFFGLFDNYILLPPH-- 162
Cdd:COG4219     1 WLAGVLLLLLRLLISLLRLRRLLRRARP-VTDEELLELLERLARRLGIRRPVRLLESDRITSPFSFGLLRPVILLPAGle 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 163 NYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELHCDEVVLKGCslENIKSYANTILDS 242
Cdd:COG4219    80 ELSEEELEAILAHELAHIRRRDLLDNLLAELLLALFWFNPLVWLARRRLRLDRELACDAAVLKAG--GDRKAYAETLLKL 157

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2053256436 243 IERSSRdsNNYTTGLH-RKSNFEKRVYDMFKNKGKS 277
Cdd:COG4219   158 AERRSQ--PALALAFGgSKSTLKKRIKMLLKSKSKR 191
M56_BlaR1_MecR1_like cd07341
Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase; ...
 84-266 1.08e-39

Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase; This family contains peptidase M56, which includes zinc metalloprotease domain in MecR1 as well as BlaR1. MecR1 is a transmembrane beta-lactam sensor/signal transducer protein that regulates the expression of an altered penicillin-binding protein PBP2a, which resists inactivation by beta-lactam antibiotics, in methicillin-resistant Staphylococcus aureus (MRSA). BlaR1 regulates the inducible expression of a class A beta-lactamase that hydrolytically destroys certain ?-lactam antibiotics in MRSA. Both, MecR1 and BlaR1, are transmembrane proteins that consist of four transmembrane helices, a cytoplasmic zinc protease domain, and the soluble C-terminal extracellular sensor domain, and are highly similar in sequence and function. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription. All members contain the zinc metalloprotease motif (HEXXH). Homologs of this peptidase domain are also found in a number of other bacterial genome sequences, most of which are as yet uncharacterized.


Pssm-ID: 320700 [Multi-domain]  Cd Length: 187  Bit Score: 137.85  E-value: 1.08e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  84 IYLTIVILLAIYRFIKYLKFKSLVIDLSYdienlEINNLYNNLLKELNIEKHIKLKYTYEINTPSFFGLFDNYILLPP-- 161
Cdd:cd07341     1 IWLAGALLLLLRLLRGLLRLRRLRRRAEP-----VPDSLLLELARRLGLRRSVRLSVSALVASPMVVGLFRPVILLPEgl 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 162 HNYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELHCDEVVLKgcSLENIKSYANTILD 241
Cdd:cd07341    76 LEGSPEELRAILLHELAHIRRRDLLVNLLQRLLEALFWFNPLVWLLSRRLRLERELACDEAVLA--ALGDKEDYAEALLR 153

                         170       180
                  ....*....|....*....|....*
gi 2053256436 242 SIERSSRDSNNYTTGLHRKSNFEKR 266
Cdd:cd07341   154 LAERRSQPPPALALALAGSKSLLKR 178
 
Name Accession Description Interval E-value
Peptidase_M56 pfam05569
BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which ...
 10-267 4.87e-45

BlaR1 peptidase M56; Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription. homologs to this peptidase domain, which corresponds to Merops family M56, are also found in a number of other bacterial genome sequences.


Pssm-ID: 428523  Cd Length: 296  Bit Score: 155.32  E-value: 4.87e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  10 LRTSITSSLVICFLLLLRTTIFRIFNKGFNYYIWLIVIVRLLFPFSYFtYTISDSKF-------------QYKPILNEVD 76
Cdd:pfam05569   4 LRASIAAAAAVLVVLLLRRPLRRYLGAIWAYALWLIVPLALLAPFIPE-SALSNFTTsaifmarskapinSTAPKVIDDQ 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  77 YSNT---------------VLIIYLTIVILLAIYRFIKYLKFKSLVIDLSYDIENLEINNLYNNLLKELNIEKHIKLKYT 141
Cdd:pfam05569  83 ASPLatpfpvvawstilkiLLLLWIVGALILLLYMIAAYLVFRQRRVRRLGSLRAHELDDILKEAKEDMGIKRPITISLS 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 142 YEINTPSFFGLFDNYILLPP---HNYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELH 218
Cdd:pfam05569 163 SNIDSPAVLGLWKPRIVLPAdfdTRLSGEEIDYILAHELSHLKRGDLIINLLVAVLQCLHWFNPLVHLAFRKIRIDQELA 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2053256436 219 CDEVVLKGCSLENIKSYANTILDSIERSSRDSNNYT-TGLHR-KSNFEKRV 267
Cdd:pfam05569 243 CDAAVLARLHPHERKEYGRTLLKLLAGPSNHIVPVAcVWLAGaKSALKERI 293
MecR1 COG4219
Signal transducer regulating beta-lactamase production, contains metallopeptidase domain ...
 85-277 2.46e-41

Signal transducer regulating beta-lactamase production, contains metallopeptidase domain [Signal transduction mechanisms];


Pssm-ID: 443363 [Multi-domain]  Cd Length: 337  Bit Score: 146.73  E-value: 2.46e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  85 YLTIVILLAIYRFIKYLKFKSLVIDLSYdIENLEINNLYNNLLKELNIEKHIKLKYTYEINTPSFFGLFDNYILLPPH-- 162
Cdd:COG4219     1 WLAGVLLLLLRLLISLLRLRRLLRRARP-VTDEELLELLERLARRLGIRRPVRLLESDRITSPFSFGLLRPVILLPAGle 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 163 NYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELHCDEVVLKGCslENIKSYANTILDS 242
Cdd:COG4219    80 ELSEEELEAILAHELAHIRRRDLLDNLLAELLLALFWFNPLVWLARRRLRLDRELACDAAVLKAG--GDRKAYAETLLKL 157

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2053256436 243 IERSSRdsNNYTTGLH-RKSNFEKRVYDMFKNKGKS 277
Cdd:COG4219   158 AERRSQ--PALALAFGgSKSTLKKRIKMLLKSKSKR 191
M56_BlaR1_MecR1_like cd07341
Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase; ...
 84-266 1.08e-39

Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase; This family contains peptidase M56, which includes zinc metalloprotease domain in MecR1 as well as BlaR1. MecR1 is a transmembrane beta-lactam sensor/signal transducer protein that regulates the expression of an altered penicillin-binding protein PBP2a, which resists inactivation by beta-lactam antibiotics, in methicillin-resistant Staphylococcus aureus (MRSA). BlaR1 regulates the inducible expression of a class A beta-lactamase that hydrolytically destroys certain ?-lactam antibiotics in MRSA. Both, MecR1 and BlaR1, are transmembrane proteins that consist of four transmembrane helices, a cytoplasmic zinc protease domain, and the soluble C-terminal extracellular sensor domain, and are highly similar in sequence and function. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription. All members contain the zinc metalloprotease motif (HEXXH). Homologs of this peptidase domain are also found in a number of other bacterial genome sequences, most of which are as yet uncharacterized.


Pssm-ID: 320700 [Multi-domain]  Cd Length: 187  Bit Score: 137.85  E-value: 1.08e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436  84 IYLTIVILLAIYRFIKYLKFKSLVIDLSYdienlEINNLYNNLLKELNIEKHIKLKYTYEINTPSFFGLFDNYILLPP-- 161
Cdd:cd07341     1 IWLAGALLLLLRLLRGLLRLRRLRRRAEP-----VPDSLLLELARRLGLRRSVRLSVSALVASPMVVGLFRPVILLPEgl 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053256436 162 HNYNLNELHWILKHELIHYKSKDLYIRYLVLFLKCVYFFNPFIYLLDRIIYHSCELHCDEVVLKgcSLENIKSYANTILD 241
Cdd:cd07341    76 LEGSPEELRAILLHELAHIRRRDLLVNLLQRLLEALFWFNPLVWLLSRRLRLERELACDEAVLA--ALGDKEDYAEALLR 153

                         170       180
                  ....*....|....*....|....*
gi 2053256436 242 SIERSSRDSNNYTTGLHRKSNFEKR 266
Cdd:cd07341   154 LAERRSQPPPALALALAGSKSLLKR 178
 
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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