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Conserved domains on  [gi|1101056166|gb|OIO18198|]
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signal peptidase I [Candidatus Kuenenbacteria bacterium CG1_02_38_13]

Protein Classification

S24/S26 family peptidase( domain architecture ID 586)

S24/S26 family peptidase similar to human signal peptidase complex catalytic subunit SEC11C, a component of the microsomal signal peptidase complex which removes signal peptides from nascent proteins as they are translocated into the lumen of the endoplasmic reticulum

EC:  3.4.21.-
Gene Ontology:  GO:0017171

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Peptidase_S24_S26 super family cl10465
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 15-155 4.22e-17

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.


The actual alignment was detected with superfamily member TIGR02228:

Pssm-ID: 447902  Cd Length: 158  Bit Score: 73.63  E-value: 4.22e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  15 LFIGIIVLLVFFTVGSNTNILRGYKSFMVLSGSMEPTINIGDIVI--THKQINYFKNDTITFYGPENR-VVTHRIALIKE 91
Cdd:TIGR02228   8 YFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFNTGDLILvtGADPNDIQVGDVITYKSPGFNtPVTHRVIEINN 87

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1101056166  92 QDGDTIIITKGDANRSIDSNTITPSKIIGKVIFI-VPKLGFVVSFSRTIPGLVLLIFVPAVALIS 155
Cdd:TIGR02228  88 SGGELGFITKGDNNPAPDGEPVPSENVIGKYLGFtIPFAGYVLVFAPQAIGAAALLIIPGIGLIS 152
 
Name Accession Description Interval E-value
sigpep_I_arch TIGR02228
signal peptidase I, archaeal type; This model represents signal peptidase I from most archaea, ...
 15-155 4.22e-17

signal peptidase I, archaeal type; This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.


Pssm-ID: 131283  Cd Length: 158  Bit Score: 73.63  E-value: 4.22e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  15 LFIGIIVLLVFFTVGSNTNILRGYKSFMVLSGSMEPTINIGDIVI--THKQINYFKNDTITFYGPENR-VVTHRIALIKE 91
Cdd:TIGR02228   8 YFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFNTGDLILvtGADPNDIQVGDVITYKSPGFNtPVTHRVIEINN 87

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1101056166  92 QDGDTIIITKGDANRSIDSNTITPSKIIGKVIFI-VPKLGFVVSFSRTIPGLVLLIFVPAVALIS 155
Cdd:TIGR02228  88 SGGELGFITKGDNNPAPDGEPVPSENVIGKYLGFtIPFAGYVLVFAPQAIGAAALLIIPGIGLIS 152
Peptidase_S24_S26 cd06462
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 41-122 1.42e-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: 1.42e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  41 FMVLSGSMEPTINIGDIVITHKQINYFKN-DTITFYGPENRVVTHRIALIKEQDGdtiIITKGDANRSIDSNTITPSK-- 117
Cdd:cd06462     3 LRVEGDSMEPTIPDGDLVLVDKSSYEPKRgDIVVFRLPGGELTVKRVIGLPGEGH---YFLLGDNPNSPDSRIDGPPEld 79


                  ....*
gi 1101056166 118 IIGKV 122
Cdd:cd06462    80 IVGVV 84
LepB COG0681
Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];
1-102 9.77e-07

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


Pssm-ID: 440445 [Multi-domain]  Cd Length: 189  Bit Score: 46.38  E-value: 9.77e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166   1 MKSPIKFVFELISWLFIGIIVLLVFFtvgsntnILRGY--KSFMVLSGSMEPTINIGDIVITHKQINYFK----NDTITF 74
Cdd:COG0681     1 MSKKKKKKRELREWLKSIVIALLLAL-------LIRTFvfEPFVIPSGSMEPTLLVGDRLLVNKLSYGFGepkrGDIVVF 73

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1101056166  75 YGPEN-------RVvthrIALikeqDGDTIIITKG 102
Cdd:COG0681    74 KYPEDpskdyikRV----IGL----PGDTVEIRDG 100
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 11-90 7.45e-05

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: 40.65  E-value: 7.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  11 LISW-LFIGIIVLLVFFtvgsntniLRGY--KSFMVLSGSMEPTINIGDIVITHKQINYFKN----DTITFYGPENRvvt 83
Cdd:pfam10502   1 LLEWvKAIVIALLLALL--------IRTFlfEPYVVPGGSMSPTLPIGDYLIVNKFSYGLGEpkrgDIVVFRPPEGP--- 69


                  ....*..
gi 1101056166  84 hRIALIK 90
Cdd:pfam10502  70 -GVPLIK 75
 
Name Accession Description Interval E-value
sigpep_I_arch TIGR02228
signal peptidase I, archaeal type; This model represents signal peptidase I from most archaea, ...
 15-155 4.22e-17

signal peptidase I, archaeal type; This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.


Pssm-ID: 131283  Cd Length: 158  Bit Score: 73.63  E-value: 4.22e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  15 LFIGIIVLLVFFTVGSNTNILRGYKSFMVLSGSMEPTINIGDIVI--THKQINYFKNDTITFYGPENR-VVTHRIALIKE 91
Cdd:TIGR02228   8 YFILIILLVILLLYGLVSKASGPDPVVVVLSGSMEPTFNTGDLILvtGADPNDIQVGDVITYKSPGFNtPVTHRVIEINN 87

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1101056166  92 QDGDTIIITKGDANRSIDSNTITPSKIIGKVIFI-VPKLGFVVSFSRTIPGLVLLIFVPAVALIS 155
Cdd:TIGR02228  88 SGGELGFITKGDNNPAPDGEPVPSENVIGKYLGFtIPFAGYVLVFAPQAIGAAALLIIPGIGLIS 152
Peptidase_S24_S26 cd06462
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 41-122 1.42e-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: 1.42e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  41 FMVLSGSMEPTINIGDIVITHKQINYFKN-DTITFYGPENRVVTHRIALIKEQDGdtiIITKGDANRSIDSNTITPSK-- 117
Cdd:cd06462     3 LRVEGDSMEPTIPDGDLVLVDKSSYEPKRgDIVVFRLPGGELTVKRVIGLPGEGH---YFLLGDNPNSPDSRIDGPPEld 79


                  ....*
gi 1101056166 118 IIGKV 122
Cdd:cd06462    80 IVGVV 84
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 41-122 1.07e-10

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: 54.90  E-value: 1.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  41 FMVLSGSMEPTINIGDIVITHKQINYFKN----DTITFYGPEN--RVVTHRIalIKeqdgdtiIITKGDA-NRSIDSN-- 111
Cdd:cd06530     3 VVVPGGSMEPTLQPGDLVLVNKLSYGFREpkrgDVVVFKSPGDpgKPIIKRV--IG-------YFVLGDNrNNSLDSRyw 73

                          90
                  ....*....|..
gi 1101056166 112 -TITPSKIIGKV 122
Cdd:cd06530    74 gPVPEDDIVGKV 85
LepB COG0681
Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport];
1-102 9.77e-07

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


Pssm-ID: 440445 [Multi-domain]  Cd Length: 189  Bit Score: 46.38  E-value: 9.77e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166   1 MKSPIKFVFELISWLFIGIIVLLVFFtvgsntnILRGY--KSFMVLSGSMEPTINIGDIVITHKQINYFK----NDTITF 74
Cdd:COG0681     1 MSKKKKKKRELREWLKSIVIALLLAL-------LIRTFvfEPFVIPSGSMEPTLLVGDRLLVNKLSYGFGepkrGDIVVF 73

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1101056166  75 YGPEN-------RVvthrIALikeqDGDTIIITKG 102
Cdd:COG0681    74 KYPEDpskdyikRV----IGL----PGDTVEIRDG 100
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 11-90 7.45e-05

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: 40.65  E-value: 7.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1101056166  11 LISW-LFIGIIVLLVFFtvgsntniLRGY--KSFMVLSGSMEPTINIGDIVITHKQINYFKN----DTITFYGPENRvvt 83
Cdd:pfam10502   1 LLEWvKAIVIALLLALL--------IRTFlfEPYVVPGGSMSPTLPIGDYLIVNKFSYGLGEpkrgDIVVFRPPEGP--- 69


                  ....*..
gi 1101056166  84 hRIALIK 90
Cdd:pfam10502  70 -GVPLIK 75
sigpep_I_bact TIGR02227
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 38-103 3.36e-04

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: 38.75  E-value: 3.36e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1101056166  38 YKSFMVLSGSMEPTINIGDIVITHKQINYFK----NDTITFYGPENRvvthRIALIKE---QDGDTIIITKGD 103
Cdd:TIGR02227   3 FFPYKIPGGSMEPTLKEGDRILVNKFAYRTSdpkrGDIVVFKDPDTN----KNIYVKRiigLPGDKVEFRDGK 71
 
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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