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Conserved domains on  [gi|1264345325|ref|WP_097959290.1|]
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LPD25 domain-containing protein

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LPD25 pfam18840
Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in ...
 382-487 8.01e-13

Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in polyvalent proteins of conjugative elements.


:

Pssm-ID: 436774  Cd Length: 99  Bit Score: 65.02  E-value: 8.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 382 NEINRPTMLVQWSENENFKGSQLIPFGEANEKMAeviknieKAKEEARERDEYVPYDKTRYHIAIPKEVDRDFgrmelvS 461
Cdd:pfam18840   1 IKIDEPYVLINWSESPEFEEGELYSFAEANALLA-------KLDEAYYRKDEPGYYDKTKFTIDFDNGGEKDH------Y 67

                          90       100
                  ....*....|....*....|....*.
gi 1264345325 462 MDRLDMGDGDyKTPYEQVLNEKRYLS 487
Cdd:pfam18840  68 EGRLDIGDGE-GSLIDHLESYNEYYL 92
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 165-242 8.87e-10

IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, which is a metallopeptidase containing an HEXXH zinc-binding motif from peptidase family M78. ImmA is encoded on a conjugative transposon. Conjugating bacteria are able to transfer conjugative transposons that can, for example, confer resistance to antibiotics. The transposon is integrated into the chromosome, but during conjugation excises itself and then moves to the recipient bacterium and re-integrate into its chromosome. Typically a conjugative tranposon encodes only the proteins required for this activity and the proteins that regulate it. During exponential growth, the ICEBs1 transposon of Bacillus subtilis is inactivated by the immunity repressor protein ImmR, which is encoded by the transposon and represses the genes for excision and transfer. Cleavage of ImmR relaxes repression and allows transfer of the transposon. ImmA has been shown to be essential for the cleavage of ImmR. This domain is also found in in metalloprotease IrrE, a central regulator of DNA damage repair in Deinococcaceae, HTH-type transcriptional regulators RamB and PrpC.


:

Pssm-ID: 399250  Cd Length: 122  Bit Score: 57.04  E-value: 8.87e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 165 AEKNGVKIIEPKQELGVAKGVSYT-LTNEVALNPRNSELQNVKTLLHELAHAKLHT-----AETHMNYTAPEKEFQAEMT 238
Cdd:pfam06114   1 AERLGIRVFFLPLGAEDGDGRRFDrHTPVIFLNENLSPTRQRFTLAHELGHLLLHEggdtlSDQFDFKTAEAREREANIF 80


                  ....
gi 1264345325 239 AYAV 242
Cdd:pfam06114  81 AAAL 84
ArdcN pfam08401
N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of ...
 28-126 8.92e-07

N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of anti-restriction factor ArdC deployed by plasmids and phages in polyvalent proteins related to the BHD domains of XPC/Rad4 and the Tc-38 domain found in kinetoplastid minicircle binding proteins. The structure of this domain is composed of three alpha-helices and a three-stranded beta-sheet that supports a long and protuberant beta-hairpin. This domain is also found in the N-terminal region of the RP4 TraC1 primase, together with the Toprim domain (pfam01751, pfam13362 and pfam13662).


:

Pssm-ID: 429975  Cd Length: 127  Bit Score: 48.49  E-value: 8.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325  28 FMAKFYHYSPSNISLIQSQFQGAS----AVGSFSFWKEKGFPVKKGEKGIKILVPNRTVAKFKDKEGawKTVTKANEEEK 103
Cdd:pfam08401  37 NAATGRPYSGINVLLLWLAAPEAGytspRWLTFKQAKELGGQVRKGEKGTPVVYYKFFVKEDEDDKD--YKEADEEGEEE 114

                          90       100
                  ....*....|....*....|...
gi 1264345325 104 KQiesksvevmpGRLYFAVGHVF 126
Cdd:pfam08401 115 ER----------EIPFLKTYTVF 127
 
Name Accession Description Interval E-value
LPD25 pfam18840
Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in ...
 382-487 8.01e-13

Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in polyvalent proteins of conjugative elements.


Pssm-ID: 436774  Cd Length: 99  Bit Score: 65.02  E-value: 8.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 382 NEINRPTMLVQWSENENFKGSQLIPFGEANEKMAeviknieKAKEEARERDEYVPYDKTRYHIAIPKEVDRDFgrmelvS 461
Cdd:pfam18840   1 IKIDEPYVLINWSESPEFEEGELYSFAEANALLA-------KLDEAYYRKDEPGYYDKTKFTIDFDNGGEKDH------Y 67

                          90       100
                  ....*....|....*....|....*.
gi 1264345325 462 MDRLDMGDGDyKTPYEQVLNEKRYLS 487
Cdd:pfam18840  68 EGRLDIGDGE-GSLIDHLESYNEYYL 92
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 165-242 8.87e-10

IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, which is a metallopeptidase containing an HEXXH zinc-binding motif from peptidase family M78. ImmA is encoded on a conjugative transposon. Conjugating bacteria are able to transfer conjugative transposons that can, for example, confer resistance to antibiotics. The transposon is integrated into the chromosome, but during conjugation excises itself and then moves to the recipient bacterium and re-integrate into its chromosome. Typically a conjugative tranposon encodes only the proteins required for this activity and the proteins that regulate it. During exponential growth, the ICEBs1 transposon of Bacillus subtilis is inactivated by the immunity repressor protein ImmR, which is encoded by the transposon and represses the genes for excision and transfer. Cleavage of ImmR relaxes repression and allows transfer of the transposon. ImmA has been shown to be essential for the cleavage of ImmR. This domain is also found in in metalloprotease IrrE, a central regulator of DNA damage repair in Deinococcaceae, HTH-type transcriptional regulators RamB and PrpC.


Pssm-ID: 399250  Cd Length: 122  Bit Score: 57.04  E-value: 8.87e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 165 AEKNGVKIIEPKQELGVAKGVSYT-LTNEVALNPRNSELQNVKTLLHELAHAKLHT-----AETHMNYTAPEKEFQAEMT 238
Cdd:pfam06114   1 AERLGIRVFFLPLGAEDGDGRRFDrHTPVIFLNENLSPTRQRFTLAHELGHLLLHEggdtlSDQFDFKTAEAREREANIF 80


                  ....
gi 1264345325 239 AYAV 242
Cdd:pfam06114  81 AAAL 84
ArdcN pfam08401
N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of ...
 28-126 8.92e-07

N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of anti-restriction factor ArdC deployed by plasmids and phages in polyvalent proteins related to the BHD domains of XPC/Rad4 and the Tc-38 domain found in kinetoplastid minicircle binding proteins. The structure of this domain is composed of three alpha-helices and a three-stranded beta-sheet that supports a long and protuberant beta-hairpin. This domain is also found in the N-terminal region of the RP4 TraC1 primase, together with the Toprim domain (pfam01751, pfam13362 and pfam13662).


Pssm-ID: 429975  Cd Length: 127  Bit Score: 48.49  E-value: 8.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325  28 FMAKFYHYSPSNISLIQSQFQGAS----AVGSFSFWKEKGFPVKKGEKGIKILVPNRTVAKFKDKEGawKTVTKANEEEK 103
Cdd:pfam08401  37 NAATGRPYSGINVLLLWLAAPEAGytspRWLTFKQAKELGGQVRKGEKGTPVVYYKFFVKEDEDDKD--YKEADEEGEEE 114

                          90       100
                  ....*....|....*....|...
gi 1264345325 104 KQiesksvevmpGRLYFAVGHVF 126
Cdd:pfam08401 115 ER----------EIPFLKTYTVF 127
 
Name Accession Description Interval E-value
LPD25 pfam18840
Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in ...
 382-487 8.01e-13

Large polyvalent protein associated domain 25; This is an alpha and beta fold domain found in polyvalent proteins of conjugative elements.


Pssm-ID: 436774  Cd Length: 99  Bit Score: 65.02  E-value: 8.01e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 382 NEINRPTMLVQWSENENFKGSQLIPFGEANEKMAeviknieKAKEEARERDEYVPYDKTRYHIAIPKEVDRDFgrmelvS 461
Cdd:pfam18840   1 IKIDEPYVLINWSESPEFEEGELYSFAEANALLA-------KLDEAYYRKDEPGYYDKTKFTIDFDNGGEKDH------Y 67

                          90       100
                  ....*....|....*....|....*.
gi 1264345325 462 MDRLDMGDGDyKTPYEQVLNEKRYLS 487
Cdd:pfam18840  68 EGRLDIGDGE-GSLIDHLESYNEYYL 92
Peptidase_M78 pfam06114
IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, ...
 165-242 8.87e-10

IrrE N-terminal-like domain; This entry includes the catalytic domain of the protein ImmA, which is a metallopeptidase containing an HEXXH zinc-binding motif from peptidase family M78. ImmA is encoded on a conjugative transposon. Conjugating bacteria are able to transfer conjugative transposons that can, for example, confer resistance to antibiotics. The transposon is integrated into the chromosome, but during conjugation excises itself and then moves to the recipient bacterium and re-integrate into its chromosome. Typically a conjugative tranposon encodes only the proteins required for this activity and the proteins that regulate it. During exponential growth, the ICEBs1 transposon of Bacillus subtilis is inactivated by the immunity repressor protein ImmR, which is encoded by the transposon and represses the genes for excision and transfer. Cleavage of ImmR relaxes repression and allows transfer of the transposon. ImmA has been shown to be essential for the cleavage of ImmR. This domain is also found in in metalloprotease IrrE, a central regulator of DNA damage repair in Deinococcaceae, HTH-type transcriptional regulators RamB and PrpC.


Pssm-ID: 399250  Cd Length: 122  Bit Score: 57.04  E-value: 8.87e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325 165 AEKNGVKIIEPKQELGVAKGVSYT-LTNEVALNPRNSELQNVKTLLHELAHAKLHT-----AETHMNYTAPEKEFQAEMT 238
Cdd:pfam06114   1 AERLGIRVFFLPLGAEDGDGRRFDrHTPVIFLNENLSPTRQRFTLAHELGHLLLHEggdtlSDQFDFKTAEAREREANIF 80


                  ....
gi 1264345325 239 AYAV 242
Cdd:pfam06114  81 AAAL 84
ArdcN pfam08401
N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of ...
 28-126 8.92e-07

N-terminal domain of anti-restriction factor ArdC; This is the ssDNA binding domain of anti-restriction factor ArdC deployed by plasmids and phages in polyvalent proteins related to the BHD domains of XPC/Rad4 and the Tc-38 domain found in kinetoplastid minicircle binding proteins. The structure of this domain is composed of three alpha-helices and a three-stranded beta-sheet that supports a long and protuberant beta-hairpin. This domain is also found in the N-terminal region of the RP4 TraC1 primase, together with the Toprim domain (pfam01751, pfam13362 and pfam13662).


Pssm-ID: 429975  Cd Length: 127  Bit Score: 48.49  E-value: 8.92e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264345325  28 FMAKFYHYSPSNISLIQSQFQGAS----AVGSFSFWKEKGFPVKKGEKGIKILVPNRTVAKFKDKEGawKTVTKANEEEK 103
Cdd:pfam08401  37 NAATGRPYSGINVLLLWLAAPEAGytspRWLTFKQAKELGGQVRKGEKGTPVVYYKFFVKEDEDDKD--YKEADEEGEEE 114

                          90       100
                  ....*....|....*....|...
gi 1264345325 104 KQiesksvevmpGRLYFAVGHVF 126
Cdd:pfam08401 115 ER----------EIPFLKTYTVF 127
 
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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