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Conserved domains on  [gi|499518177|ref|WP_011204817|]
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PAAR domain-containing protein [Burkholderia pseudomallei]

Protein Classification

PAAR domain-containing protein( domain architecture ID 10200967)

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)

CATH:  2.60.200.60
PubMed:  23925114
SCOP:  4005541

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-82 2.61e-27

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: 98.01  E-value: 2.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177   3 RNMLVLGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCKSDGHIVGAGPSWpmTFDGKQVALENDLCVCKCDPPPR 82
Cdd:cd14744    1 RGIIRLGDKTTHGGVVISGSSTFTIDGRPVARVGDKVTCPKCKGTGPIVEGGPTF--TVDGRPVALDGDRVACGCPLIPS 78
COG4253 super family cl47344
Uncharacterized conserved protein, DUF2345 family [Function unknown];
96-174 2.16e-07

Uncharacterized conserved protein, DUF2345 family [Function unknown];


The actual alignment was detected with superfamily member COG4253:

Pssm-ID: 443395 [Multi-domain]  Cd Length: 900  Bit Score: 50.04  E-value: 2.16e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177  96 GHQLaqMGYAADGSPLSDQAMHAFDEQVRI-LDEHGEPLANVPYHIRDQSGNEYQGLTDEDGLCPRVSTASIETLSIAVG 174
Cdd:COG4253  820 SHSF--TGPASASAALPSLPKGALDEQFVLrHDATGEPLANQPYRITLADGSVVEGVTDAQGKTELLGTPAPESVKIELL 897
 
Name Accession Description Interval E-value
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-82 2.61e-27

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: 98.01  E-value: 2.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177   3 RNMLVLGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCKSDGHIVGAGPSWpmTFDGKQVALENDLCVCKCDPPPR 82
Cdd:cd14744    1 RGIIRLGDKTTHGGVVISGSSTFTIDGRPVARVGDKVTCPKCKGTGPIVEGGPTF--TVDGRPVALDGDRVACGCPLIPS 78
PAAR_motif pfam05488
PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. ...
 8-77 1.43e-11

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: 57.19  E-value: 1.43e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177    8 LGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCKSDGHIVGAGPSwpMTFDGKQVALENDLCVCKC 77
Cdd:pfam05488   1 LGDKTSHGGVVITGSPTVLIGGKPAARVGDLVVCPPCGGGGPIAEGSPT--VLINGKPAAREGDKTACGA 68
PAAR COG4104
Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular ...
 1-77 5.52e-08

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: 48.27  E-value: 5.52e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499518177   1 MKRNMLVLGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCkSDGHIVGAGPSWpmTFDGKQVALENDLCVCKC 77
Cdd:COG4104    1 MPKPAARLGDKTSHGGPVISGSPTVLIGGRPAARVGDKVSCPKH-GPDTIAEGSPTV--LINGKPAARVGDKTACGG 74
COG4253 COG4253
Uncharacterized conserved protein, DUF2345 family [Function unknown];
96-174 2.16e-07

Uncharacterized conserved protein, DUF2345 family [Function unknown];


Pssm-ID: 443395 [Multi-domain]  Cd Length: 900  Bit Score: 50.04  E-value: 2.16e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177  96 GHQLaqMGYAADGSPLSDQAMHAFDEQVRI-LDEHGEPLANVPYHIRDQSGNEYQGLTDEDGLCPRVSTASIETLSIAVG 174
Cdd:COG4253  820 SHSF--TGPASASAALPSLPKGALDEQFVLrHDATGEPLANQPYRITLADGSVVEGVTDAQGKTELLGTPAPESVKIELL 897
 
Name Accession Description Interval E-value
PAAR_CT_2 cd14744
proline-alanine-alanine-arginine (PAAR) domain with uncharacterized C-terminal extension; This ...
 3-82 2.61e-27

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: 98.01  E-value: 2.61e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177   3 RNMLVLGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCKSDGHIVGAGPSWpmTFDGKQVALENDLCVCKCDPPPR 82
Cdd:cd14744    1 RGIIRLGDKTTHGGVVISGSSTFTIDGRPVARVGDKVTCPKCKGTGPIVEGGPTF--TVDGRPVALDGDRVACGCPLIPS 78
PAAR_motif pfam05488
PAAR motif; This motif is found usually in pairs in a family of bacterial membrane proteins. ...
 8-77 1.43e-11

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: 57.19  E-value: 1.43e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177    8 LGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCKSDGHIVGAGPSwpMTFDGKQVALENDLCVCKC 77
Cdd:pfam05488   1 LGDKTSHGGVVITGSPTVLIGGKPAARVGDLVVCPPCGGGGPIAEGSPT--VLINGKPAAREGDKTACGA 68
PAAR COG4104
Zn-binding Pro-Ala-Ala-Arg (PAAR) domain, involved in Type VI secretion [Intracellular ...
 1-77 5.52e-08

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: 48.27  E-value: 5.52e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499518177   1 MKRNMLVLGDRTTAGGIVQEGVAAGFNNGTPLAYHGALVHCPTCkSDGHIVGAGPSWpmTFDGKQVALENDLCVCKC 77
Cdd:COG4104    1 MPKPAARLGDKTSHGGPVISGSPTVLIGGRPAARVGDKVSCPKH-GPDTIAEGSPTV--LINGKPAARVGDKTACGG 74
COG4253 COG4253
Uncharacterized conserved protein, DUF2345 family [Function unknown];
96-174 2.16e-07

Uncharacterized conserved protein, DUF2345 family [Function unknown];


Pssm-ID: 443395 [Multi-domain]  Cd Length: 900  Bit Score: 50.04  E-value: 2.16e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499518177  96 GHQLaqMGYAADGSPLSDQAMHAFDEQVRI-LDEHGEPLANVPYHIRDQSGNEYQGLTDEDGLCPRVSTASIETLSIAVG 174
Cdd:COG4253  820 SHSF--TGPASASAALPSLPKGALDEQFVLrHDATGEPLANQPYRITLADGSVVEGVTDAQGKTELLGTPAPESVKIELL 897
 
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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