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Conserved domains on  [gi|686137262|ref|WP_031775142|]
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BppU family phage baseplate upper protein [Staphylococcus aureus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
BppU_N pfam10651
BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also ...
 9-152 6.66e-32

BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also known as ORF48) which is found in phage from a number of different bacteria. The N-terminal domain exhibits a beta-sandwich immunoglobulin fold.


:

Pssm-ID: 431419  Cd Length: 141  Bit Score: 118.97  E-value: 6.66e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686137262    9 AINLENTAHYENISNLDITFRTGESDSSVLLFNITKNNQPLLLSeeNIKARIAIRGK--GVMVVAPLEILDPFKGILKFQ 86
Cdd:pfam10651   2 DITLDTTAQNNKIKQTGIRFRTGDSNTAVLNFKITKNGQPLDLT--GLTAKFELVKPddGSIVSDELEILDAKKGKFKYV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 686137262   87 LPNDVIKRDGSYQAQVSVAELGNSdvVVVERTITFNVEKSLFSMIPseTKLHYIVEFQELEKTIMD 152
Cdd:pfam10651  80 LPEEVLKHVGKVKAYFSVFKEDDQ--VISTRNFSFNVEKSLVEDGI--VSSDYIEDFEDLIEEVTE 141
pyocin_knob cd19958
knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly ...
 286-338 3.54e-04

knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly repeated structural domain in R-type pyocins, which are high-molecular weight bacteriocins produced by some strains of Pseudomonas aeruginosa to specifically kill other strains of the same species. R-type pyocins are structurally similar to simple contractile tails, such as those of phage P2 and Mu, and they punch a hole in the bacterial envelope to efficiently kill target cells. The second knob domain may contain regions responsible for determining the killing spectrum. Knob-like domains occur in host-recognition and binding proteins of, not only pyocins, but also phages, such as in phage K1F endosialidase (not represented by this model), where it may interact with sialic acid, the cell surface molecule that is recognized during infection.


:

Pssm-ID: 410997 [Multi-domain]  Cd Length: 80  Bit Score: 39.24  E-value: 3.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 686137262 286 AINYPrgVSTNGTVEYLVVTSDYKRMTYRPNGTNKVFVKRKEAGSWSEWSELA 338
Cdd:cd19958   30 ALNYP--VAGAGYLEVYRYGGGGVTQIYTPYNSGRIYVRTRYNGTWSAWKEIA 80
CPSase_L_D3 super family cl47772
Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate ...
 136-186 2.75e-03

Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate synthase catalyzes the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain.


The actual alignment was detected with superfamily member pfam02787:

Pssm-ID: 460695  Cd Length: 79  Bit Score: 36.59  E-value: 2.75e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 686137262  136 KLHYIVEFqelEKTIMDHAKAMDEAikngedyasLIEKAKEKGLSDIQIAK 186
Cdd:pfam02787  40 KIKNIVEL---EKELKEAGLDLDAE---------LLREAKRLGFSDRQIAK 78
 
Name Accession Description Interval E-value
BppU_N pfam10651
BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also ...
 9-152 6.66e-32

BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also known as ORF48) which is found in phage from a number of different bacteria. The N-terminal domain exhibits a beta-sandwich immunoglobulin fold.


Pssm-ID: 431419  Cd Length: 141  Bit Score: 118.97  E-value: 6.66e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686137262    9 AINLENTAHYENISNLDITFRTGESDSSVLLFNITKNNQPLLLSeeNIKARIAIRGK--GVMVVAPLEILDPFKGILKFQ 86
Cdd:pfam10651   2 DITLDTTAQNNKIKQTGIRFRTGDSNTAVLNFKITKNGQPLDLT--GLTAKFELVKPddGSIVSDELEILDAKKGKFKYV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 686137262   87 LPNDVIKRDGSYQAQVSVAELGNSdvVVVERTITFNVEKSLFSMIPseTKLHYIVEFQELEKTIMD 152
Cdd:pfam10651  80 LPEEVLKHVGKVKAYFSVFKEDDQ--VISTRNFSFNVEKSLVEDGI--VSSDYIEDFEDLIEEVTE 141
pyocin_knob cd19958
knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly ...
 286-338 3.54e-04

knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly repeated structural domain in R-type pyocins, which are high-molecular weight bacteriocins produced by some strains of Pseudomonas aeruginosa to specifically kill other strains of the same species. R-type pyocins are structurally similar to simple contractile tails, such as those of phage P2 and Mu, and they punch a hole in the bacterial envelope to efficiently kill target cells. The second knob domain may contain regions responsible for determining the killing spectrum. Knob-like domains occur in host-recognition and binding proteins of, not only pyocins, but also phages, such as in phage K1F endosialidase (not represented by this model), where it may interact with sialic acid, the cell surface molecule that is recognized during infection.


Pssm-ID: 410997 [Multi-domain]  Cd Length: 80  Bit Score: 39.24  E-value: 3.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 686137262 286 AINYPrgVSTNGTVEYLVVTSDYKRMTYRPNGTNKVFVKRKEAGSWSEWSELA 338
Cdd:cd19958   30 ALNYP--VAGAGYLEVYRYGGGGVTQIYTPYNSGRIYVRTRYNGTWSAWKEIA 80
CPSase_L_D3 pfam02787
Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate ...
 136-186 2.75e-03

Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate synthase catalyzes the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain.


Pssm-ID: 460695  Cd Length: 79  Bit Score: 36.59  E-value: 2.75e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 686137262  136 KLHYIVEFqelEKTIMDHAKAMDEAikngedyasLIEKAKEKGLSDIQIAK 186
Cdd:pfam02787  40 KIKNIVEL---EKELKEAGLDLDAE---------LLREAKRLGFSDRQIAK 78
 
Name Accession Description Interval E-value
BppU_N pfam10651
BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also ...
 9-152 6.66e-32

BppU N-terminal domain; This is the N-terminal domain of baseplate upper proteins (BppU, also known as ORF48) which is found in phage from a number of different bacteria. The N-terminal domain exhibits a beta-sandwich immunoglobulin fold.


Pssm-ID: 431419  Cd Length: 141  Bit Score: 118.97  E-value: 6.66e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 686137262    9 AINLENTAHYENISNLDITFRTGESDSSVLLFNITKNNQPLLLSeeNIKARIAIRGK--GVMVVAPLEILDPFKGILKFQ 86
Cdd:pfam10651   2 DITLDTTAQNNKIKQTGIRFRTGDSNTAVLNFKITKNGQPLDLT--GLTAKFELVKPddGSIVSDELEILDAKKGKFKYV 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 686137262   87 LPNDVIKRDGSYQAQVSVAELGNSdvVVVERTITFNVEKSLFSMIPseTKLHYIVEFQELEKTIMD 152
Cdd:pfam10651  80 LPEEVLKHVGKVKAYFSVFKEDDQ--VISTRNFSFNVEKSLVEDGI--VSSDYIEDFEDLIEEVTE 141
pyocin_knob cd19958
knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly ...
 286-338 3.54e-04

knob domain of R1 and R2 pyocins and similar domains; The knob domain is present as a tandemly repeated structural domain in R-type pyocins, which are high-molecular weight bacteriocins produced by some strains of Pseudomonas aeruginosa to specifically kill other strains of the same species. R-type pyocins are structurally similar to simple contractile tails, such as those of phage P2 and Mu, and they punch a hole in the bacterial envelope to efficiently kill target cells. The second knob domain may contain regions responsible for determining the killing spectrum. Knob-like domains occur in host-recognition and binding proteins of, not only pyocins, but also phages, such as in phage K1F endosialidase (not represented by this model), where it may interact with sialic acid, the cell surface molecule that is recognized during infection.


Pssm-ID: 410997 [Multi-domain]  Cd Length: 80  Bit Score: 39.24  E-value: 3.54e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 686137262 286 AINYPrgVSTNGTVEYLVVTSDYKRMTYRPNGTNKVFVKRKEAGSWSEWSELA 338
Cdd:cd19958   30 ALNYP--VAGAGYLEVYRYGGGGVTQIYTPYNSGRIYVRTRYNGTWSAWKEIA 80
CPSase_L_D3 pfam02787
Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate ...
 136-186 2.75e-03

Carbamoyl-phosphate synthetase large chain, oligomerization domain; Carbamoyl-phosphate synthase catalyzes the ATP-dependent synthesis of carbamyl-phosphate from glutamine or ammonia and bicarbonate. The carbamoyl-phosphate synthase (CPS) enzyme in prokaryotes is a heterodimer of a small and large chain.


Pssm-ID: 460695  Cd Length: 79  Bit Score: 36.59  E-value: 2.75e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 686137262  136 KLHYIVEFqelEKTIMDHAKAMDEAikngedyasLIEKAKEKGLSDIQIAK 186
Cdd:pfam02787  40 KIKNIVEL---EKELKEAGLDLDAE---------LLREAKRLGFSDRQIAK 78
 
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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