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Conserved domains on  [gi|124513174|ref|XP_001349943|]
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type I signal peptidase [Plasmodium falciparum 3D7]

Protein Classification

S26 family signal peptidase( domain architecture ID 1000376)

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

CATH:  2.10.109.10
EC:  3.4.21.-
Gene Ontology:  GO:0006465|GO:0004252
PubMed:  7845208|12475201

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
sigpep_I_bact super family cl37079
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 254-335 5.60e-14

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]


The actual alignment was detected with superfamily member TIGR02227:

Pssm-ID: 274044 [Multi-domain]  Cd Length: 142  Bit Score: 68.41  E-value: 5.60e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174  254 YKRGDVVLLVSPVNEKKRVCKRIIA-------IENDKLFIDN------------------FHSYVEIPPNNIWVEGDNQM 308
Cdd:TIGR02227  35 PKRGDIVVFKDPDTNKNIYVKRIIGlpgdkveFRDGKLYINGkkidepylkpngyldtseFNTPVKVPPGHYFVLGDNRD 114

                          90       100
                  ....*....|....*....|....*..
gi 124513174  309 DSYDSRNYGSVHVQLIIGKVFFLLDPF 335
Cdd:TIGR02227 115 NSLDSRYFGFVPIDQIIGKVSFVFYPF 141
 
Name Accession Description Interval E-value
sigpep_I_bact TIGR02227
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 254-335 5.60e-14

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: 68.41  E-value: 5.60e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174  254 YKRGDVVLLVSPVNEKKRVCKRIIA-------IENDKLFIDN------------------FHSYVEIPPNNIWVEGDNQM 308
Cdd:TIGR02227  35 PKRGDIVVFKDPDTNKNIYVKRIIGlpgdkveFRDGKLYINGkkidepylkpngyldtseFNTPVKVPPGHYFVLGDNRD 114

                          90       100
                  ....*....|....*....|....*..
gi 124513174  309 DSYDSRNYGSVHVQLIIGKVFFLLDPF 335
Cdd:TIGR02227 115 NSLDSRYFGFVPIDQIIGKVSFVFYPF 141
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 254-328 1.17e-13

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: 65.68  E-value: 1.17e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124513174 254 YKRGDVVLLVSPVNEKKRVCKRIIAIendklfidnfhsyveippnniWVEGDNQMDSYDSRNYGSVHVQLIIGKV 328
Cdd:cd06530   32 PKRGDVVVFKSPGDPGKPIIKRVIGY---------------------FVLGDNRNNSLDSRYWGPVPEDDIVGKV 85
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 255-330 1.86e-10

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: 58.76  E-value: 1.86e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174  255 KRGDVVLLVSPVNEKKRVCKRIIA-------IENDKLFIDN---------------------FHSYVEIPPNNIWVEGDN 306
Cdd:pfam10502  56 KRGDIVVFRPPEGPGVPLIKRVIGlpgdrveYKDDQLYINGkpvgepyladrkgrptfdlppWQGCRVVPEGEYFVMGDN 135

                          90       100
                  ....*....|....*....|....
gi 124513174  307 QMDSYDSRNYGSVHVQLIIGKVFF 330
Cdd:pfam10502 136 RDNSLDSRYFGFVPASNIVGRAVF 159
TraF COG4959
Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, ...
 256-332 7.80e-08

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: 50.29  E-value: 7.80e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174 256 RGDVVLLVSP---------VNEKKRVCKRIIA-------IENDKLFID-------------------NFHSYVeIPPNNI 300
Cdd:COG4959    1 RGDLVAFRPPeplaaergyLPRGVPLIKRVAAlpgdtvcIKGGQVYINgkpvaealerdragrplpvWQGCGV-VPEGEY 79

                         90       100       110
                 ....*....|....*....|....*....|..
gi 124513174 301 WVEGDNQMDSYDSRNYGSVHVQLIIGKVFFLL 332
Cdd:COG4959   80 FLLGDNRPNSFDSRYFGPVPRSQIIGRAVPLW 111
 
Name Accession Description Interval E-value
sigpep_I_bact TIGR02227
signal peptidase I, bacterial type; This model represents signal peptidase I from most ...
 254-335 5.60e-14

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: 68.41  E-value: 5.60e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174  254 YKRGDVVLLVSPVNEKKRVCKRIIA-------IENDKLFIDN------------------FHSYVEIPPNNIWVEGDNQM 308
Cdd:TIGR02227  35 PKRGDIVVFKDPDTNKNIYVKRIIGlpgdkveFRDGKLYINGkkidepylkpngyldtseFNTPVKVPPGHYFVLGDNRD 114

                          90       100
                  ....*....|....*....|....*..
gi 124513174  309 DSYDSRNYGSVHVQLIIGKVFFLLDPF 335
Cdd:TIGR02227 115 NSLDSRYFGFVPIDQIIGKVSFVFYPF 141
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 254-328 1.17e-13

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: 65.68  E-value: 1.17e-13
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124513174 254 YKRGDVVLLVSPVNEKKRVCKRIIAIendklfidnfhsyveippnniWVEGDNQMDSYDSRNYGSVHVQLIIGKV 328
Cdd:cd06530   32 PKRGDVVVFKSPGDPGKPIIKRVIGY---------------------FVLGDNRNNSLDSRYWGPVPEDDIVGKV 85
Peptidase_S26 pfam10502
Signal peptidase, peptidase S26; This is a family of membrane signal serine endopeptidases ...
 255-330 1.86e-10

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: 58.76  E-value: 1.86e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174  255 KRGDVVLLVSPVNEKKRVCKRIIA-------IENDKLFIDN---------------------FHSYVEIPPNNIWVEGDN 306
Cdd:pfam10502  56 KRGDIVVFRPPEGPGVPLIKRVIGlpgdrveYKDDQLYINGkpvgepyladrkgrptfdlppWQGCRVVPEGEYFVMGDN 135

                          90       100
                  ....*....|....*....|....
gi 124513174  307 QMDSYDSRNYGSVHVQLIIGKVFF 330
Cdd:pfam10502 136 RDNSLDSRYFGFVPASNIVGRAVF 159
TraF COG4959
Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, ...
 256-332 7.80e-08

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: 50.29  E-value: 7.80e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 124513174 256 RGDVVLLVSP---------VNEKKRVCKRIIA-------IENDKLFID-------------------NFHSYVeIPPNNI 300
Cdd:COG4959    1 RGDLVAFRPPeplaaergyLPRGVPLIKRVAAlpgdtvcIKGGQVYINgkpvaealerdragrplpvWQGCGV-VPEGEY 79

                         90       100       110
                 ....*....|....*....|....*....|..
gi 124513174 301 WVEGDNQMDSYDSRNYGSVHVQLIIGKVFFLL 332
Cdd:COG4959   80 FLLGDNRPNSFDSRYFGPVPRSQIIGRAVPLW 111
Peptidase_S24_S26 cd06462
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 254-328 6.93e-05

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: 41.10  E-value: 6.93e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 124513174 254 YKRGDVVLLVSPVNEkkRVCKRIIAIENdklfidnfhsyveipPNNIWVEGDNQmDSYDSRNYGsVHVQLIIGKV 328
Cdd:cd06462   29 PKRGDIVVFRLPGGE--LTVKRVIGLPG---------------EGHYFLLGDNP-NSPDSRIDG-PPELDIVGVV 84
sod_Ni_protease TIGR02754
nickel-type superoxide dismutase maturation protease; Members of this protein family are ...
 255-328 5.69e-04

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: 38.59  E-value: 5.69e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 124513174  255 KRGDVVLLVSPVNEKKRVCKRIIAIENdklfidnfhsyveippNNIWVEGDNQMDSYDSRNYGSVHVQLIIGKV 328
Cdd:TIGR02754  31 PIGNVVVVRHPLQPYGLIIKRLAAVDD----------------NGLFLLGDNPKASTDSRQLGPVPRSLLLGKV 88
 
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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