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Conserved domains on  [gi|497588227|ref|WP_009902411|]
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signal peptidase I [Clostridioides difficile]

Protein Classification

S26 family signal peptidase( domain architecture ID 12106434)

S26 family signal peptidase is a membrane-bound serine protease which frees proteins tethered to inner or mitochondrial membranes by cleaving off signal peptides during polypeptide translocation

EC:  3.4.21.-
Gene Ontology:  GO:0004252|GO:0006465|GO:0016020|GO:0006508|GO:0008236
MEROPS:  S26
PubMed:  22031009|16126156|10982814

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 7-166 7.28e-54

Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases which function in the processing of newly-synthesized secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal, signal peptides as proteins are translocated across membranes. The active site residues take the form of a catalytic dyad that is Ser, Lys in subfamily S26A; the Ser is the nucleophile in catalysis, and the Lys is the general base.


:

Pssm-ID: 431321 [Multi-domain]  Cd Length: 162  Bit Score: 168.15  E-value: 7.28e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227    7 IFDWIKSIAMAIVLAFVILQFI-RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKtnlvdGETGKKKDLIK 85
Cdd:pfam10502   1 LLEWVKAIVIALLLALLIRTFLfEPYVVPGGSMSPTLPIGDYLIVNKFSYGLGEPKRGDIVVFR-----PPEGPGVPLIK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   86 RVIATEGDRIKISNSKVYVNGKLLNEPYIHNN-------YTSGDIDTVVPKGKLFAMGDNRENSNDSRFpdVGMVDEDEV 158
Cdd:pfam10502  76 RVIGLPGDRVEYKDDQLYINGKPVGEPYLADRkgrptfdLPPWQGCRVVPEGEYFVMGDNRDNSLDSRY--FGFVPASNI 153


                  ....*...
gi 497588227  159 LGKVMVRL 166
Cdd:pfam10502 154 VGRAVFPV 161
 
Name Accession Description Interval E-value
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 7-166 7.28e-54

Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases which function in the processing of newly-synthesized secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal, signal peptides as proteins are translocated across membranes. The active site residues take the form of a catalytic dyad that is Ser, Lys in subfamily S26A; the Ser is the nucleophile in catalysis, and the Lys is the general base.


Pssm-ID: 431321 [Multi-domain]  Cd Length: 162  Bit Score: 168.15  E-value: 7.28e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227    7 IFDWIKSIAMAIVLAFVILQFI-RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKtnlvdGETGKKKDLIK 85
Cdd:pfam10502   1 LLEWVKAIVIALLLALLIRTFLfEPYVVPGGSMSPTLPIGDYLIVNKFSYGLGEPKRGDIVVFR-----PPEGPGVPLIK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   86 RVIATEGDRIKISNSKVYVNGKLLNEPYIHNN-------YTSGDIDTVVPKGKLFAMGDNRENSNDSRFpdVGMVDEDEV 158
Cdd:pfam10502  76 RVIGLPGDRVEYKDDQLYINGKPVGEPYLADRkgrptfdLPPWQGCRVVPEGEYFVMGDNRDNSLDSRY--FGFVPASNI 153


                  ....*...
gi 497588227  159 LGKVMVRL 166
Cdd:pfam10502 154 VGRAVFPV 161
sigpep_I_bact TIGR02227
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 27-170 9.61e-45

signal peptidase I, bacterial type; This model represents signal peptidase I from most bacteria. Eukaryotic sequences are likely organellar. Several bacteria have multiple paralogs, but these represent isozymes of signal peptidase I. Virtually all known bacteria may be presumed to A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 274044 [Multi-domain]  Cd Length: 142  Bit Score: 144.29  E-value: 9.61e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   27 FIRPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKTnlvdgETGKKKDLIKRVIATEGDRIKISNSKVYVNG 106
Cdd:TIGR02227   2 VFFPYKIPGGSMEPTLKEGDRILVNKFAYRTSDPKRGDIVVFKD-----PDTNKNIYVKRIIGLPGDKVEFRDGKLYING 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497588227  107 KLLNEPYIHNNYTSGDID----TVVPKGKLFAMGDNRENSNDSRFpdVGMVDEDEVLGKVMVRLLPLD 170
Cdd:TIGR02227  77 KKIDEPYLKPNGYLDTSEfntpVKVPPGHYFVLGDNRDNSLDSRY--FGFVPIDQIIGKVSFVFYPFD 142
LepB COG0681
Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];
2-165 5.08e-39

Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440445 [Multi-domain]  Cd Length: 189  Bit Score: 131.51  E-value: 5.08e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   2 SVKKEIFDWIKSIAMAIVLAFVILQFI-RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKtnlvdGETGKK 80
Cdd:COG0681    6 KKKRELREWLKSIVIALLLALLIRTFVfEPFVIPSGSMEPTLLVGDRLLVNKLSYGFGEPKRGDIVVFK-----YPEDPS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  81 KDLIKRVIATEGDRIKISNSKVYVNGKLLNEPYIHNNYT--SGDIDTVVPKGKLFAMGDNRENSNDSRFPDVGMVDEDEV 158
Cdd:COG0681   81 KDYIKRVIGLPGDTVEIRDGQVYVNGKPLNEPYLEEYYYpvSVDGDVEVPPGEEEVPGGGGDNSNDSRSGDPDDGGGGVG 160


                 ....*..
gi 497588227 159 LGKVMVR 165
Cdd:COG0681  161 VDGVGVG 167
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 29-162 2.34e-21

The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism.


Pssm-ID: 119398 [Multi-domain]  Cd Length: 85  Bit Score: 83.02  E-value: 2.34e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  29 RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKTNlvdgeTGKKKDLIKRVIAtegdrikisnskvyvngkl 108
Cdd:cd06530    1 EPVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSP-----GDPGKPIIKRVIG------------------- 56

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 497588227 109 lnepyihnnytsgdidtvvpkgkLFAMGDNRENSNDSRFPdvGMVDEDEVLGKV 162
Cdd:cd06530   57 -----------------------YFVLGDNRNNSLDSRYW--GPVPEDDIVGKV 85
PRK10861 PRK10861
signal peptidase I;
10-161 7.85e-13

signal peptidase I;


Pssm-ID: 182787 [Multi-domain]  Cd Length: 324  Bit Score: 65.08  E-value: 7.85e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  10 WIKSIA-----MAIVlaFVILQFI-RP-SIVSGeSMYPTLDDKDYLILNRISY------------KVGKPEKGDIVVFKT 70
Cdd:PRK10861  60 WLETGAsvfpvLAIV--LIVRSFIyEPfQIPSG-SMMPTLLIGDFILVEKFAYgikdpitqttliETGHPKRGDIVVFKY 136

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  71 NLvdgetGKKKDLIKRVIATEGDRIK-------------------------ISNSKVY----------------VNGKL- 108
Cdd:PRK10861 137 PE-----DPKLDYIKRVVGLPGDKVTydpvskevtiqpgcssgqacenalpVTYSNVEpsdfvqtfsrrnggeaTSGFFq 211

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227 109 --LNEPyIHNNY-------TSGDIDT--------------------------VVPKGKLFAMGDNRENSNDSRFpdVGMV 153
Cdd:PRK10861 212 vpLNET-KENGIrlserkeTLGDVTHriltvpgaqdqvgmyyqqpgqplatwVVPPGQYFMMGDNRDNSADSRY--WGFV 288


                 ....*...
gi 497588227 154 DEDEVLGK 161
Cdd:PRK10861 289 PEANLVGK 296
 
Name Accession Description Interval E-value
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 7-166 7.28e-54

Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases which function in the processing of newly-synthesized secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal, signal peptides as proteins are translocated across membranes. The active site residues take the form of a catalytic dyad that is Ser, Lys in subfamily S26A; the Ser is the nucleophile in catalysis, and the Lys is the general base.


Pssm-ID: 431321 [Multi-domain]  Cd Length: 162  Bit Score: 168.15  E-value: 7.28e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227    7 IFDWIKSIAMAIVLAFVILQFI-RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKtnlvdGETGKKKDLIK 85
Cdd:pfam10502   1 LLEWVKAIVIALLLALLIRTFLfEPYVVPGGSMSPTLPIGDYLIVNKFSYGLGEPKRGDIVVFR-----PPEGPGVPLIK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   86 RVIATEGDRIKISNSKVYVNGKLLNEPYIHNN-------YTSGDIDTVVPKGKLFAMGDNRENSNDSRFpdVGMVDEDEV 158
Cdd:pfam10502  76 RVIGLPGDRVEYKDDQLYINGKPVGEPYLADRkgrptfdLPPWQGCRVVPEGEYFVMGDNRDNSLDSRY--FGFVPASNI 153


                  ....*...
gi 497588227  159 LGKVMVRL 166
Cdd:pfam10502 154 VGRAVFPV 161
sigpep_I_bact TIGR02227
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 27-170 9.61e-45

signal peptidase I, bacterial type; This model represents signal peptidase I from most bacteria. Eukaryotic sequences are likely organellar. Several bacteria have multiple paralogs, but these represent isozymes of signal peptidase I. Virtually all known bacteria may be presumed to A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 274044 [Multi-domain]  Cd Length: 142  Bit Score: 144.29  E-value: 9.61e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   27 FIRPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKTnlvdgETGKKKDLIKRVIATEGDRIKISNSKVYVNG 106
Cdd:TIGR02227   2 VFFPYKIPGGSMEPTLKEGDRILVNKFAYRTSDPKRGDIVVFKD-----PDTNKNIYVKRIIGLPGDKVEFRDGKLYING 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497588227  107 KLLNEPYIHNNYTSGDID----TVVPKGKLFAMGDNRENSNDSRFpdVGMVDEDEVLGKVMVRLLPLD 170
Cdd:TIGR02227  77 KKIDEPYLKPNGYLDTSEfntpVKVPPGHYFVLGDNRDNSLDSRY--FGFVPIDQIIGKVSFVFYPFD 142
LepB COG0681
Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];
2-165 5.08e-39

Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 440445 [Multi-domain]  Cd Length: 189  Bit Score: 131.51  E-value: 5.08e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   2 SVKKEIFDWIKSIAMAIVLAFVILQFI-RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKtnlvdGETGKK 80
Cdd:COG0681    6 KKKRELREWLKSIVIALLLALLIRTFVfEPFVIPSGSMEPTLLVGDRLLVNKLSYGFGEPKRGDIVVFK-----YPEDPS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  81 KDLIKRVIATEGDRIKISNSKVYVNGKLLNEPYIHNNYT--SGDIDTVVPKGKLFAMGDNRENSNDSRFPDVGMVDEDEV 158
Cdd:COG0681   81 KDYIKRVIGLPGDTVEIRDGQVYVNGKPLNEPYLEEYYYpvSVDGDVEVPPGEEEVPGGGGDNSNDSRSGDPDDGGGGVG 160


                 ....*..
gi 497588227 159 LGKVMVR 165
Cdd:COG0681  161 VDGVGVG 167
TraF COG4959
Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, ...
 62-168 2.40e-25

Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones, Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443985 [Multi-domain]  Cd Length: 114  Bit Score: 93.82  E-value: 2.40e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  62 KGDIVVFKT----NLVDGETGKKKDLIKRVIATEGDRIKISNSKVYVNGKLLNEPYIH----NNYTSGDIDTVVPKGKLF 133
Cdd:COG4959    1 RGDLVAFRPpeplAAERGYLPRGVPLIKRVAALPGDTVCIKGGQVYINGKPVAEALERdragRPLPVWQGCGVVPEGEYF 80

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 497588227 134 AMGDNRENSNDSRFpdVGMVDEDEVLGKVMVRLLP 168
Cdd:COG4959   81 LLGDNRPNSFDSRY--FGPVPRSQIIGRAVPLWTP 113
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 29-162 2.34e-21

The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism.


Pssm-ID: 119398 [Multi-domain]  Cd Length: 85  Bit Score: 83.02  E-value: 2.34e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  29 RPSIVSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKTNlvdgeTGKKKDLIKRVIAtegdrikisnskvyvngkl 108
Cdd:cd06530    1 EPVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSP-----GDPGKPIIKRVIG------------------- 56

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 497588227 109 lnepyihnnytsgdidtvvpkgkLFAMGDNRENSNDSRFPdvGMVDEDEVLGKV 162
Cdd:cd06530   57 -----------------------YFVLGDNRNNSLDSRYW--GPVPEDDIVGKV 85
PRK10861 PRK10861
signal peptidase I;
10-161 7.85e-13

signal peptidase I;


Pssm-ID: 182787 [Multi-domain]  Cd Length: 324  Bit Score: 65.08  E-value: 7.85e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  10 WIKSIA-----MAIVlaFVILQFI-RP-SIVSGeSMYPTLDDKDYLILNRISY------------KVGKPEKGDIVVFKT 70
Cdd:PRK10861  60 WLETGAsvfpvLAIV--LIVRSFIyEPfQIPSG-SMMPTLLIGDFILVEKFAYgikdpitqttliETGHPKRGDIVVFKY 136

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  71 NLvdgetGKKKDLIKRVIATEGDRIK-------------------------ISNSKVY----------------VNGKL- 108
Cdd:PRK10861 137 PE-----DPKLDYIKRVVGLPGDKVTydpvskevtiqpgcssgqacenalpVTYSNVEpsdfvqtfsrrnggeaTSGFFq 211

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227 109 --LNEPyIHNNY-------TSGDIDT--------------------------VVPKGKLFAMGDNRENSNDSRFpdVGMV 153
Cdd:PRK10861 212 vpLNET-KENGIrlserkeTLGDVTHriltvpgaqdqvgmyyqqpgqplatwVVPPGQYFMMGDNRDNSADSRY--WGFV 288


                 ....*...
gi 497588227 154 DEDEVLGK 161
Cdd:PRK10861 289 PEANLVGK 296
Peptidase_S24_S26 cd06462
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 29-162 1.91e-11

The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases.


Pssm-ID: 119396 [Multi-domain]  Cd Length: 84  Bit Score: 57.27  E-value: 1.91e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227  29 RPSIVSGESMYPTLDDKDYLILNRISYkvgKPEKGDIVVFKTNlvdgetgKKKDLIKRVIATEGdrikisnskvyvngkl 108
Cdd:cd06462    1 FALRVEGDSMEPTIPDGDLVLVDKSSY---EPKRGDIVVFRLP-------GGELTVKRVIGLPG---------------- 54

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 497588227 109 lnepyihnnytsgdidtvvpKGKLFAMGDNrENSNDSRFPDvgmVDEDEVLGKV 162
Cdd:cd06462   55 --------------------EGHYFLLGDN-PNSPDSRIDG---PPELDIVGVV 84
TraF_Ti TIGR02771
conjugative transfer signal peptidase TraF; This protein is found in apparent operons encoding ...
 60-162 5.36e-07

conjugative transfer signal peptidase TraF; This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.


Pssm-ID: 131818 [Multi-domain]  Cd Length: 171  Bit Score: 47.09  E-value: 5.36e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   60 PEKGDIVVFKT--NLVDGETGKK------------KDLIKRVIATEGDRIKISNSKVYVNGKLLNEPYIHNNYTSGDI-- 123
Cdd:TIGR02771  47 VERGDYVVFCPpdNPQFEEARERgylreglcpggfGPLLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPlp 126

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 497588227  124 ---DTVVPKGkLFAMGDNRENSNDSRFpdVGMVDEDEVLGKV 162
Cdd:TIGR02771 127 pfpEGVIPPG-FFVVHDTSPTSFDSRY--FGPISREQVIGRV 165
sod_Ni_protease TIGR02754
nickel-type superoxide dismutase maturation protease; Members of this protein family are ...
 33-162 1.38e-05

nickel-type superoxide dismutase maturation protease; Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad. [Cellular processes, Detoxification, Protein fate, Protein modification and repair]


Pssm-ID: 274282 [Multi-domain]  Cd Length: 90  Bit Score: 41.67  E-value: 1.38e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497588227   33 VSGESMYPTLDDKDYLILNRISYKVGKPEKGDIVVFKTNLVDGETgkkkdLIKRVIAtegdrikisnskvyvngkllnep 112
Cdd:TIGR02754   3 VTGVSMSPTLPPGDRIIVVPWLKIFRVPPIGNVVVVRHPLQPYGL-----IIKRLAA----------------------- 54

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 497588227  113 yihnnytsgdidtvVPKGKLFAMGDNRENSNDSRfpDVGMVDEDEVLGKV 162
Cdd:TIGR02754  55 --------------VDDNGLFLLGDNPKASTDSR--QLGPVPRSLLLGKV 88
COG2932 COG2932
Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: ...
 33-97 3.98e-05

Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: prophages, transposons];


Pssm-ID: 442176  Cd Length: 121  Bit Score: 41.10  E-value: 3.98e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 497588227  33 VSGESMYPTLDDKDYLIlnrISYKVGKPEKGDIVVFKTnlvDGETgkkkdLIKRVIATEGDRIKI 97
Cdd:COG2932   40 VSGDSMEPTIRDGDIVL---VDPSDTEIRDGGIYVVRT---DGEL-----LVKRLQRRPDGKLRL 93
S24_LexA-like cd06529
Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of ...
 33-98 1.35e-04

Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response.


Pssm-ID: 119397 [Multi-domain]  Cd Length: 81  Bit Score: 38.69  E-value: 1.35e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497588227  33 VSGESMYPTLDDKDYLILNRisykVGKPEKGDIVVFKtnlVDGETgkkkdLIKRVIATEGDRIKIS 98
Cdd:cd06529    5 VKGDSMEPTIPDGDLVLVDP----SDTPRDGDIVVAR---LDGEL-----TVKRLQRRGGGRLRLI 58
PRK13884 PRK13884
conjugal transfer peptidase TraF; Provisional
 83-147 1.28e-03

conjugal transfer peptidase TraF; Provisional


Pssm-ID: 184368  Cd Length: 178  Bit Score: 37.70  E-value: 1.28e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 497588227  83 LIKRVIATEGDRIKISNSKVYVNGKLL-----------NEP---YIHNNYTSGDidtvvpkGKLFAMGDNRENSNDSRF 147
Cdd:PRK13884  88 MMKRVLAAKGDAVSVTDDGVRVNGELLplskpiladgaGRPlprYQANSYTLGE-------SELLLMSDVSATSFDGRY 159
Peptidase_S24 pfam00717
Peptidase S24-like;
33-103 7.88e-03

Peptidase S24-like;


Pssm-ID: 425835  Cd Length: 116  Bit Score: 34.49  E-value: 7.88e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 497588227   33 VSGESMYPTLDDKDYLILNRISykvgKPEKGDIVVFktnLVDGETgkkkdLIKRVIaTEGDRIK-ISNSKVY 103
Cdd:pfam00717  40 VKGDSMEPGIPDGDLVLVDPSR----EARNGDIVVA---RLDGEA-----TVKRLY-RDGGGIRlISLNPEY 98
 
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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