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Conserved domains on  [gi|1418664954|gb|RAY33433|]
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S-type Pyocin domain-containing protein [Enterobacter kobei]

Protein Classification

PAAR domain-containing protein( domain architecture ID 10201006)

PAAR (proline-alanine-alanine-arginine) domain-containing protein forms a sharp conical extension on the VgrG spike, a trimeric protein complex of the bacterial type VI secretion system (T6SS)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 285-424 5.94e-35

S-type Pyocin; This family represents a conserved region approximately 180 residues long within bacterial S-type pyocins. Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity.


:

Pssm-ID: 399737  Cd Length: 139  Bit Score: 128.26  E-value: 5.94e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1418664954 285 LLEVAHRKGTVLTRVRYNWItDDETGRLKAVGYHTSTESGRDQVRVRMLEKQMD-GSYEFWGDERiDKPLITWTPASTPG 363
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRII-DDEDGRLKVYGVHTGGAGVPDRVPVRAATLDAEtGSYEFTADGA-PGPTILWTPASPPG 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1418664954 364 SQDSwNTGNNSPQAGTVTIPGLEHPEIQGVTITTTPVPEEKDFRDYILVFP-GNIHPPIYIY 424
Cdd:pfam06958  79 NGPP-STSSPAAPPDTPVITGTPIPPVVGEVIEPYPAPDERDFRDYILVFPaDSGLPPLYVV 139
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-76 3.50e-19

proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This domain is found in the PAAR (proline-alanine-alanine-arginine) repeat family of mostly beta- and gamma-proteobacteria, and forms a sharp conical extension on the VgrG spike, a trimeric protein complex of the bacterial type VI secretion system (T6SS). Most members contain C-terminal domain extensions corresponding to several uncharacterized domains such as S-type pyocin, DUF2235, DUF2345 and cytotoxic proteins. However, these terminal domains are exposed to solution, and do not distort the binding site of VgrG. The pointed tip of the PAAR domain is stabilized by a zinc atom positioned close to the cone's vertex and is likely to be important for its integrity during penetration of the target cell envelope. VgrG proteins are orthologous to the central baseplate spikes of bacteriophages with contractile tails, and genes encoding proteins with PAAR motifs have been frequently found immediately downstream from vgrG-like genes.


:

Pssm-ID: 269829  Cd Length: 78  Bit Score: 81.83  E-value: 3.50e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1418664954   3 RALVRLGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetCNGPFQINGTAYHFAEDKACVA-TGDRVLCNCK 76
Cdd:cd14744     1 RGIIRLGDKTTHGGVVISGSSTfTIDGRPVARVGDKVTCPK--CKGTGPIVEGGPTFTVDGRPVAlDGDRVACGCP 74
 
Name Accession Description Interval E-value
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 285-424 5.94e-35

S-type Pyocin; This family represents a conserved region approximately 180 residues long within bacterial S-type pyocins. Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity.


Pssm-ID: 399737  Cd Length: 139  Bit Score: 128.26  E-value: 5.94e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1418664954 285 LLEVAHRKGTVLTRVRYNWItDDETGRLKAVGYHTSTESGRDQVRVRMLEKQMD-GSYEFWGDERiDKPLITWTPASTPG 363
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRII-DDEDGRLKVYGVHTGGAGVPDRVPVRAATLDAEtGSYEFTADGA-PGPTILWTPASPPG 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1418664954 364 SQDSwNTGNNSPQAGTVTIPGLEHPEIQGVTITTTPVPEEKDFRDYILVFP-GNIHPPIYIY 424
Cdd:pfam06958  79 NGPP-STSSPAAPPDTPVITGTPIPPVVGEVIEPYPAPDERDFRDYILVFPaDSGLPPLYVV 139
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-76 3.50e-19

proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This domain is found in the PAAR (proline-alanine-alanine-arginine) repeat family of mostly beta- and gamma-proteobacteria, and forms a sharp conical extension on the VgrG spike, a trimeric protein complex of the bacterial type VI secretion system (T6SS). Most members contain C-terminal domain extensions corresponding to several uncharacterized domains such as S-type pyocin, DUF2235, DUF2345 and cytotoxic proteins. However, these terminal domains are exposed to solution, and do not distort the binding site of VgrG. The pointed tip of the PAAR domain is stabilized by a zinc atom positioned close to the cone's vertex and is likely to be important for its integrity during penetration of the target cell envelope. VgrG proteins are orthologous to the central baseplate spikes of bacteriophages with contractile tails, and genes encoding proteins with PAAR motifs have been frequently found immediately downstream from vgrG-like genes.


Pssm-ID: 269829  Cd Length: 78  Bit Score: 81.83  E-value: 3.50e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1418664954   3 RALVRLGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetCNGPFQINGTAYHFAEDKACVA-TGDRVLCNCK 76
Cdd:cd14744     1 RGIIRLGDKTTHGGVVISGSSTfTIDGRPVARVGDKVTCPK--CKGTGPIVEGGPTFTVDGRPVAlDGDRVACGCP 74
PAAR COG4104
Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular ...
 1-76 1.28e-12

Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443280  Cd Length: 87  Bit Score: 63.68  E-value: 1.28e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1418664954   1 MTRALVRLGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetcNGPFQIN-GTAYHFAEDKACVATGDRVLCNCK 76
Cdd:COG4104     1 MPKPAARLGDKTSHGGPVISGSPTvLIGGRPAARVGDKVSCPK---HGPDTIAeGSPTVLINGKPAARVGDKTACGGT 75
PAAR_motif pfam05488
PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. ...
 8-76 1.88e-08

PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. It is also found as a triplet of tandem repeats comprising the entire length in a another family of hypothetical proteins.


Pssm-ID: 428491  Cd Length: 71  Bit Score: 51.03  E-value: 1.88e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1418664954   8 LGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetCNGPFQI-NGTAYHFAEDKACVATGDRVLCNCK 76
Cdd:pfam05488   1 LGDKTSHGGVVITGSPTvLIGGKPAARVGDLVVCPP--CGGGGPIaEGSPTVLINGKPAAREGDKTACGAT 69
 
Name Accession Description Interval E-value
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 285-424 5.94e-35

S-type Pyocin; This family represents a conserved region approximately 180 residues long within bacterial S-type pyocins. Pyocins are polypeptide toxins produced by, and active against, bacteria. S-type pyocins cause cell death by DNA breakdown due to endonuclease activity.


Pssm-ID: 399737  Cd Length: 139  Bit Score: 128.26  E-value: 5.94e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1418664954 285 LLEVAHRKGTVLTRVRYNWItDDETGRLKAVGYHTSTESGRDQVRVRMLEKQMD-GSYEFWGDERiDKPLITWTPASTPG 363
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRII-DDEDGRLKVYGVHTGGAGVPDRVPVRAATLDAEtGSYEFTADGA-PGPTILWTPASPPG 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1418664954 364 SQDSwNTGNNSPQAGTVTIPGLEHPEIQGVTITTTPVPEEKDFRDYILVFP-GNIHPPIYIY 424
Cdd:pfam06958  79 NGPP-STSSPAAPPDTPVITGTPIPPVVGEVIEPYPAPDERDFRDYILVFPaDSGLPPLYVV 139
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-76 3.50e-19

proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This domain is found in the PAAR (proline-alanine-alanine-arginine) repeat family of mostly beta- and gamma-proteobacteria, and forms a sharp conical extension on the VgrG spike, a trimeric protein complex of the bacterial type VI secretion system (T6SS). Most members contain C-terminal domain extensions corresponding to several uncharacterized domains such as S-type pyocin, DUF2235, DUF2345 and cytotoxic proteins. However, these terminal domains are exposed to solution, and do not distort the binding site of VgrG. The pointed tip of the PAAR domain is stabilized by a zinc atom positioned close to the cone's vertex and is likely to be important for its integrity during penetration of the target cell envelope. VgrG proteins are orthologous to the central baseplate spikes of bacteriophages with contractile tails, and genes encoding proteins with PAAR motifs have been frequently found immediately downstream from vgrG-like genes.


Pssm-ID: 269829  Cd Length: 78  Bit Score: 81.83  E-value: 3.50e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1418664954   3 RALVRLGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetCNGPFQINGTAYHFAEDKACVA-TGDRVLCNCK 76
Cdd:cd14744     1 RGIIRLGDKTTHGGVVISGSSTfTIDGRPVARVGDKVTCPK--CKGTGPIVEGGPTFTVDGRPVAlDGDRVACGCP 74
PAAR COG4104
Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular ...
 1-76 1.28e-12

Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443280  Cd Length: 87  Bit Score: 63.68  E-value: 1.28e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1418664954   1 MTRALVRLGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetcNGPFQIN-GTAYHFAEDKACVATGDRVLCNCK 76
Cdd:COG4104     1 MPKPAARLGDKTSHGGPVISGSPTvLIGGRPAARVGDKVSCPK---HGPDTIAeGSPTVLINGKPAARVGDKTACGGT 75
PAAR_motif pfam05488
PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. ...
 8-76 1.88e-08

PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. It is also found as a triplet of tandem repeats comprising the entire length in a another family of hypothetical proteins.


Pssm-ID: 428491  Cd Length: 71  Bit Score: 51.03  E-value: 1.88e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1418664954   8 LGDKTTSGGEVISASST-IIEERNIALNGDMAWCPLetCNGPFQI-NGTAYHFAEDKACVATGDRVLCNCK 76
Cdd:pfam05488   1 LGDKTSHGGVVITGSPTvLIGGKPAARVGDLVVCPP--CGGGGPIaEGSPTVLINGKPAAREGDKTACGAT 69
 
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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