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Conserved domains on  [gi|694125102|ref|WP_032465703|]
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minor capsid protein [Streptococcus pyogenes]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5585 super family cl28039
Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, ...
 100-302 1.28e-26

Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, transposons];


The actual alignment was detected with superfamily member COG5585:

Pssm-ID: 444324  Cd Length: 223  Bit Score: 107.19  E-value: 1.28e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 100 LLKRLNEQYVSARATRMdALNLELVYRAGILKGVLDSAFENHLKKvasyAYKKAMGGRSGTINGPV---------LEELV 170
Cdd:COG5585    2 DNALLSIYNLRMQVNRL-LLGAELDLELKALANGEQDAIEAFLSE----AYLREVLRAPGDLGLAAefaakaeslLDKVI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 171 RTPFDGYNYSEQLWGNTDNLVKNLQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVINNATARRYLNAG 250
Cdd:COG5585   77 NVSWNGKNWSDRIWRNKDNLGSKLADDLTTSLLRGKNPKTIIKELRREFDVSKYAAARLVITESARVQSEVQLLSYKDLG 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 694125102 251 LKYYRDLVRLDDRTTEICRTIakENKRKLLSELKPGINVAPYHFNCRTTIIP 302
Cdd:COG5585  157 VKKYKILATLDKKTSDICRSL--DGKIFDVKEAKIGVNAPPFHPNCRTTTVP 206
CDI_toxin_Bp1026b-like cd13442
C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of ...
 348-469 1.84e-24

C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of Burkholderia pseudomallei 1026b, and related proteins; CDI toxins are expressed by gram-negative bacteria as part of a mechanism to inhibit the growth of neighboring cells. This model represents the C-terminal (CT) toxin domain of CdiA effector proteins. CdiA secretion is dependent on the outer membrane protein CdiB. Upon binding to a receptor on the surface of target bacteria, the CDI toxin is delivered via the C-terminal domain. A wide variety of C-terminal toxin domains appear to exist; this particular example from Burkholderia pseudomallei 1026b and other bacteria appears to function as a Mg2+-dependent RNAse cleaving tRNA, most likely in the aminoacyl acceptor stem. This CdiA-Ct is structurally similar to another CDI toxin domain from B. pseudomallei E479 which is unrelated in sequence but has a similar nuclease domain, and shares similar fold and active-site architecture; it contains a core alpha/beta-fold that is characteristic of PD(D/E)XK superfamily nucleases.


:

Pssm-ID: 412041  Cd Length: 129  Bit Score: 98.00  E-value: 1.84e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 348 NGTPYKVDGHS--VVLDHSNYEYRVANWLSKKtGLQVDMVPRVNsPEHIKTPDYLVDGAPFDLKEITGSGKNVIDGNLRK 425
Cdd:cd13442    2 KGKPTKIDGKAdpDTLRSLERENESADILAKN-GYDVEQNPPVP-GKGGKNPDYLIEGEVFDCYAPTGSNKRNIWSTIRK 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 694125102 426 AKK-QATNIIFDITKTPLSFEEIMGQLEHIYMidrRGLD-ISIIKN 469
Cdd:cd13442   80 KVKkQADRIVLNLDDSPLSVEEIRRQLKRWPI---KGLKeLIVIKD 122
 
Name Accession Description Interval E-value
COG5585 COG5585
Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, ...
 100-302 1.28e-26

Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, transposons];


Pssm-ID: 444324  Cd Length: 223  Bit Score: 107.19  E-value: 1.28e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 100 LLKRLNEQYVSARATRMdALNLELVYRAGILKGVLDSAFENHLKKvasyAYKKAMGGRSGTINGPV---------LEELV 170
Cdd:COG5585    2 DNALLSIYNLRMQVNRL-LLGAELDLELKALANGEQDAIEAFLSE----AYLREVLRAPGDLGLAAefaakaeslLDKVI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 171 RTPFDGYNYSEQLWGNTDNLVKNLQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVINNATARRYLNAG 250
Cdd:COG5585   77 NVSWNGKNWSDRIWRNKDNLGSKLADDLTTSLLRGKNPKTIIKELRREFDVSKYAAARLVITESARVQSEVQLLSYKDLG 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 694125102 251 LKYYRDLVRLDDRTTEICRTIakENKRKLLSELKPGINVAPYHFNCRTTIIP 302
Cdd:COG5585  157 VKKYKILATLDKKTSDICRSL--DGKIFDVKEAKIGVNAPPFHPNCRTTTVP 206
CDI_toxin_Bp1026b-like cd13442
C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of ...
 348-469 1.84e-24

C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of Burkholderia pseudomallei 1026b, and related proteins; CDI toxins are expressed by gram-negative bacteria as part of a mechanism to inhibit the growth of neighboring cells. This model represents the C-terminal (CT) toxin domain of CdiA effector proteins. CdiA secretion is dependent on the outer membrane protein CdiB. Upon binding to a receptor on the surface of target bacteria, the CDI toxin is delivered via the C-terminal domain. A wide variety of C-terminal toxin domains appear to exist; this particular example from Burkholderia pseudomallei 1026b and other bacteria appears to function as a Mg2+-dependent RNAse cleaving tRNA, most likely in the aminoacyl acceptor stem. This CdiA-Ct is structurally similar to another CDI toxin domain from B. pseudomallei E479 which is unrelated in sequence but has a similar nuclease domain, and shares similar fold and active-site architecture; it contains a core alpha/beta-fold that is characteristic of PD(D/E)XK superfamily nucleases.


Pssm-ID: 412041  Cd Length: 129  Bit Score: 98.00  E-value: 1.84e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 348 NGTPYKVDGHS--VVLDHSNYEYRVANWLSKKtGLQVDMVPRVNsPEHIKTPDYLVDGAPFDLKEITGSGKNVIDGNLRK 425
Cdd:cd13442    2 KGKPTKIDGKAdpDTLRSLERENESADILAKN-GYDVEQNPPVP-GKGGKNPDYLIEGEVFDCYAPTGSNKRNIWSTIRK 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 694125102 426 AKK-QATNIIFDITKTPLSFEEIMGQLEHIYMidrRGLD-ISIIKN 469
Cdd:cd13442   80 KVKkQADRIVLNLDDSPLSVEEIRRQLKRWPI---KGLKeLIVIKD 122
phageSPP1_gp7 TIGR01641
phage putative head morphogenesis protein, SPP1 gp7 family; This model describes a region of ...
 194-302 8.01e-22

phage putative head morphogenesis protein, SPP1 gp7 family; This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 213641  Cd Length: 108  Bit Score: 90.13  E-value: 8.01e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  194 LQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVINNATARRYLNAGlKYYRDLVRLDDRTTEICRtiAK 273
Cdd:TIGR01641   1 VEDILADGVQRGLGPNELAKRLRKELGVQKHYAQRLARTETARIYNQTKLERYKKAG-PIYEYIAIIDSRTRPICR--AL 77

                          90       100
                  ....*....|....*....|....*....
gi 694125102  274 ENKRKLLSELKPGINVAPYHFNCRTTIIP 302
Cdd:TIGR01641  78 NGKIFKVDDAVPGVNAPPLHPNCRCTLAP 106
CdiA_C pfam18451
Contact-dependent growth inhibition CdiA C-terminal domain; Contact-dependent growth ...
 395-473 3.41e-19

Contact-dependent growth inhibition CdiA C-terminal domain; Contact-dependent growth inhibition (CDI) systems encode polymorphic toxin/immunity proteins that mediate competition between neighboring bacterial cells. CDI is mediated by the CdiB/CdiA family of two-partner secretion proteins. This domain represents the C-terminal of CdiA proteins (CdiA-CT), which contains the CDI toxin activity. The C-terminal nuclease domain forms a stable complex with its cognate immunity protein. It is also sufficient to inhibit growth when expressed in E. coli cells, consolidating the idea that they constitute the functional CDI toxin. The CdiA-CT C-terminal domains are structurally similar to type IIS restriction endonucleases suggesting that the toxins have metal-dependent DNase activity.


Pssm-ID: 436511  Cd Length: 81  Bit Score: 81.98  E-value: 3.41e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  395 KTPDYLVDGAPFDLKEIT-GSGKNVIDGNLRKAKKQATNIIFDITKTPLSFEEIMGQLEHIYMIDRRGL-DISIIKNKDE 472
Cdd:pfam18451   1 KTPDYLINGEIFDFKSPTsGNGKNIIRNIIKKAKKQAGNIVLNLNDSPLSIEEIIEGIKRALKWPVKGLkEVIIIDKDGE 80


                  .
gi 694125102  473 V 473
Cdd:pfam18451  81 I 81
Phage_Mu_F pfam04233
Phage Mu protein F like protein; Members of this family are found in double-stranded DNA ...
 192-301 5.45e-12

Phage Mu protein F like protein; Members of this family are found in double-stranded DNA bacteriophages, and in some bacteria. A member of this family is required for viral head morphogenesis in bacteriophage SPP1. This family is possibly a minor head protein. This family may be related to the family TT_ORF1 (pfam02956).


Pssm-ID: 309383  Cd Length: 110  Bit Score: 62.40  E-value: 5.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  192 KNLQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVIN---NATARRYLNAGlKYYRDLVRLDDRTTEIC 268
Cdd:pfam04233   1 QKIRDALTQAIMRGEGYEELAKRLKDRMQTSRSRLRTIARTEALRAYNaarYASQAAQKGVG-KYKRYSAIKDSRTRPIH 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 694125102  269 RtiAKENKRKLLSELKPGINVAPYHFNCRTTII 301
Cdd:pfam04233  80 R--ALDGKIFKVDDPFWGTGAPPEDPNCRCVLI 110
 
Name Accession Description Interval E-value
COG5585 COG5585
Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, ...
 100-302 1.28e-26

Putative phage head morphogenesis protein, F of phage Mu or gp7 of SPP1 [Mobilome: prophages, transposons];


Pssm-ID: 444324  Cd Length: 223  Bit Score: 107.19  E-value: 1.28e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 100 LLKRLNEQYVSARATRMdALNLELVYRAGILKGVLDSAFENHLKKvasyAYKKAMGGRSGTINGPV---------LEELV 170
Cdd:COG5585    2 DNALLSIYNLRMQVNRL-LLGAELDLELKALANGEQDAIEAFLSE----AYLREVLRAPGDLGLAAefaakaeslLDKVI 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 171 RTPFDGYNYSEQLWGNTDNLVKNLQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVINNATARRYLNAG 250
Cdd:COG5585   77 NVSWNGKNWSDRIWRNKDNLGSKLADDLTTSLLRGKNPKTIIKELRREFDVSKYAAARLVITESARVQSEVQLLSYKDLG 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 694125102 251 LKYYRDLVRLDDRTTEICRTIakENKRKLLSELKPGINVAPYHFNCRTTIIP 302
Cdd:COG5585  157 VKKYKILATLDKKTSDICRSL--DGKIFDVKEAKIGVNAPPFHPNCRTTTVP 206
CDI_toxin_Bp1026b-like cd13442
C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of ...
 348-469 1.84e-24

C-terminal (CT) toxin domain of the contact-dependent growth inhibition (CDI) system of Burkholderia pseudomallei 1026b, and related proteins; CDI toxins are expressed by gram-negative bacteria as part of a mechanism to inhibit the growth of neighboring cells. This model represents the C-terminal (CT) toxin domain of CdiA effector proteins. CdiA secretion is dependent on the outer membrane protein CdiB. Upon binding to a receptor on the surface of target bacteria, the CDI toxin is delivered via the C-terminal domain. A wide variety of C-terminal toxin domains appear to exist; this particular example from Burkholderia pseudomallei 1026b and other bacteria appears to function as a Mg2+-dependent RNAse cleaving tRNA, most likely in the aminoacyl acceptor stem. This CdiA-Ct is structurally similar to another CDI toxin domain from B. pseudomallei E479 which is unrelated in sequence but has a similar nuclease domain, and shares similar fold and active-site architecture; it contains a core alpha/beta-fold that is characteristic of PD(D/E)XK superfamily nucleases.


Pssm-ID: 412041  Cd Length: 129  Bit Score: 98.00  E-value: 1.84e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 348 NGTPYKVDGHS--VVLDHSNYEYRVANWLSKKtGLQVDMVPRVNsPEHIKTPDYLVDGAPFDLKEITGSGKNVIDGNLRK 425
Cdd:cd13442    2 KGKPTKIDGKAdpDTLRSLERENESADILAKN-GYDVEQNPPVP-GKGGKNPDYLIEGEVFDCYAPTGSNKRNIWSTIRK 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 694125102 426 AKK-QATNIIFDITKTPLSFEEIMGQLEHIYMidrRGLD-ISIIKN 469
Cdd:cd13442   80 KVKkQADRIVLNLDDSPLSVEEIRRQLKRWPI---KGLKeLIVIKD 122
phageSPP1_gp7 TIGR01641
phage putative head morphogenesis protein, SPP1 gp7 family; This model describes a region of ...
 194-302 8.01e-22

phage putative head morphogenesis protein, SPP1 gp7 family; This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 213641  Cd Length: 108  Bit Score: 90.13  E-value: 8.01e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  194 LQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVINNATARRYLNAGlKYYRDLVRLDDRTTEICRtiAK 273
Cdd:TIGR01641   1 VEDILADGVQRGLGPNELAKRLRKELGVQKHYAQRLARTETARIYNQTKLERYKKAG-PIYEYIAIIDSRTRPICR--AL 77

                          90       100
                  ....*....|....*....|....*....
gi 694125102  274 ENKRKLLSELKPGINVAPYHFNCRTTIIP 302
Cdd:TIGR01641  78 NGKIFKVDDAVPGVNAPPLHPNCRCTLAP 106
CdiA_C pfam18451
Contact-dependent growth inhibition CdiA C-terminal domain; Contact-dependent growth ...
 395-473 3.41e-19

Contact-dependent growth inhibition CdiA C-terminal domain; Contact-dependent growth inhibition (CDI) systems encode polymorphic toxin/immunity proteins that mediate competition between neighboring bacterial cells. CDI is mediated by the CdiB/CdiA family of two-partner secretion proteins. This domain represents the C-terminal of CdiA proteins (CdiA-CT), which contains the CDI toxin activity. The C-terminal nuclease domain forms a stable complex with its cognate immunity protein. It is also sufficient to inhibit growth when expressed in E. coli cells, consolidating the idea that they constitute the functional CDI toxin. The CdiA-CT C-terminal domains are structurally similar to type IIS restriction endonucleases suggesting that the toxins have metal-dependent DNase activity.


Pssm-ID: 436511  Cd Length: 81  Bit Score: 81.98  E-value: 3.41e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  395 KTPDYLVDGAPFDLKEIT-GSGKNVIDGNLRKAKKQATNIIFDITKTPLSFEEIMGQLEHIYMIDRRGL-DISIIKNKDE 472
Cdd:pfam18451   1 KTPDYLINGEIFDFKSPTsGNGKNIIRNIIKKAKKQAGNIVLNLNDSPLSIEEIIEGIKRALKWPVKGLkEVIIIDKDGE 80


                  .
gi 694125102  473 V 473
Cdd:pfam18451  81 I 81
Phage_Mu_F pfam04233
Phage Mu protein F like protein; Members of this family are found in double-stranded DNA ...
 192-301 5.45e-12

Phage Mu protein F like protein; Members of this family are found in double-stranded DNA bacteriophages, and in some bacteria. A member of this family is required for viral head morphogenesis in bacteriophage SPP1. This family is possibly a minor head protein. This family may be related to the family TT_ORF1 (pfam02956).


Pssm-ID: 309383  Cd Length: 110  Bit Score: 62.40  E-value: 5.45e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102  192 KNLQKRLKQGFVRGEHPRAMARDLAKRFNVANHRAETLIRTDGTMVIN---NATARRYLNAGlKYYRDLVRLDDRTTEIC 268
Cdd:pfam04233   1 QKIRDALTQAIMRGEGYEELAKRLKDRMQTSRSRLRTIARTEALRAYNaarYASQAAQKGVG-KYKRYSAIKDSRTRPIH 79

                          90       100       110
                  ....*....|....*....|....*....|...
gi 694125102  269 RtiAKENKRKLLSELKPGINVAPYHFNCRTTII 301
Cdd:pfam04233  80 R--ALDGKIFKVDDPFWGTGAPPEDPNCRCVLI 110
COG2369 COG2369
Uncharacterized protein, contains phage Mu head morphogenesis gpF-like domain [Mobilome: ...
 190-334 6.20e-07

Uncharacterized protein, contains phage Mu head morphogenesis gpF-like domain [Mobilome: prophages, transposons];


Pssm-ID: 441936 [Multi-domain]  Cd Length: 201  Bit Score: 50.03  E-value: 6.20e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 694125102 190 LVKNLQKRLKQGFVRGEHPRAMARDLAKRF------NVANHRAETLIRTDGTMVINNATARRYLNAGLKYYRDLVR---- 259
Cdd:COG2369   51 LLNDIRAALTQALEEGTTLEEFRKDLEPILakkgwgGGSKRRARTIYRTNLRTAYAAGRWARMQELGVKEARPYWRyrav 130

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 694125102 260 LDDRTTEICRtiAKENKRKLLSELKPGINVAPYHFNCRTTIIPDEDElsiEVEPIDDKSTKYFKDVTSDWiDGNE 334
Cdd:COG2369  131 GDERTRPSHR--ALDGKVLPLDDPFWGTHYPPNGWNCRCTVRALSED---DLERRGLKEDSAPEGIDPGF-DYNP 199
CDI_toxin_Bp_tRNase-like cd20727
C-terminal (CT) toxin domain of a contact-dependent growth inhibition (CDI) system (CdiA-CT) ...
 394-447 9.50e-03

C-terminal (CT) toxin domain of a contact-dependent growth inhibition (CDI) system (CdiA-CT) similar to that of Burkholderia pseudomallei, and related proteins; CDI toxins are expressed by gram-negative bacteria as part of a mechanism to inhibit the growth of neighboring cells. This model represents the C-terminal (CT) toxin domain of CdiA effector proteins. CdiA secretion is dependent on the outer membrane protein CdiB. Upon binding to a receptor on the surface of target bacteria, the CDI toxin is delivered via the C-terminal domain. A wide variety of C-terminal toxin domains appear to exist; this particular model contains the C-terminal (CT) toxin domains that are similar to Burkholderia pseudomallei E479 and 1026b CdiA toxins, both of which are tRNAses.


Pssm-ID: 412044  Cd Length: 105  Bit Score: 35.68  E-value: 9.50e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 694125102 394 IKTPDYLVDGAPFDL-KEITGSGKNVIdGNLRKAKKQATNIIFDITKTPLSFEEI 447
Cdd:cd20727   32 GRTSDLLVDGGRVDVyTPTTSNPKNIV-RAIEKKNSQAGGVVVDLDLSSADMGNI 85
 
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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