NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1245095770|gb|PBX26485|]
View 

pyocin protein [Pseudomonas aeruginosa]

Protein Classification

Pyocin_S and Colicin_E5 domain-containing protein( domain architecture ID 10536587)

Pyocin_S and Colicin_E5 domain-containing protein

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Colicin_E5 pfam12106
Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. ...
 464-553 8.26e-45

Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. Its function is to attack E. coli through actions on its inner membrane ion channels or through ribonuclease or deoxyribonuclease actions. The C terminal domain is the ribonuclease domain. It specifically cleaves tRNA anticodons which recognize codons in the form NAY (N:any nucleotide, A:adenosine, Y:pyrimidine) which corresponds to Tyrosine, Histidine, Asparagine and Aspartic Acid. E5-CRD can be referred to as an RNA restriction enzyme that specifically recognizes and cleaves single-stranded GU sequences.


:

Pssm-ID: 432335  Cd Length: 88  Bit Score: 153.05  E-value: 8.26e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 464 HDVVIDDKIREQIPIRGWTEVEIRDVIGKGATGSSSDKRRPNktIDGLGRNDSATVYGSPPNGYIVVNDRTGEIIQIADR 543
Cdd:pfam12106   1 PDTKIDDKIRNQMGKRGWTEQEVRDVVSKPAKTSSTDDKRPN--PDGLRRNDPATVYGRKDGGYVVVNDRTGEVVQVSDR 78

                          90
                  ....*....|
gi 1245095770 544 NDSAWAVDGR 553
Cdd:pfam12106  79 NDPDWIPDSR 88
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 314-458 6.16e-37

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: 133.65  E-value: 6.16e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 314 LQSVAKAGGTVDMPVRLTSAAQESpsGKSQIAAMLTNGATVPKGVPVRAATLNAATGRYEvtvpakSTVPNTPPLILTWT 393
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRIIDDED--GRLKVYGVHTGGAGVPDRVPVRAATLDAETGSYE------FTADGAPGPTILWT 72

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1245095770 394 PATPPGSQNPSSTTPVVPQPVPVYEGATITPVQAEP-ESYPGV-PLDLDDLIVIFPVGSGVKPIYIM 458
Cdd:pfam06958  73 PASPPGNGPPSTSSPAAPPDTPVITGTPIPPVVGEViEPYPAPdERDFRDYILVFPADSGLPPLYVV 139
 
Name Accession Description Interval E-value
Colicin_E5 pfam12106
Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. ...
 464-553 8.26e-45

Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. Its function is to attack E. coli through actions on its inner membrane ion channels or through ribonuclease or deoxyribonuclease actions. The C terminal domain is the ribonuclease domain. It specifically cleaves tRNA anticodons which recognize codons in the form NAY (N:any nucleotide, A:adenosine, Y:pyrimidine) which corresponds to Tyrosine, Histidine, Asparagine and Aspartic Acid. E5-CRD can be referred to as an RNA restriction enzyme that specifically recognizes and cleaves single-stranded GU sequences.


Pssm-ID: 432335  Cd Length: 88  Bit Score: 153.05  E-value: 8.26e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 464 HDVVIDDKIREQIPIRGWTEVEIRDVIGKGATGSSSDKRRPNktIDGLGRNDSATVYGSPPNGYIVVNDRTGEIIQIADR 543
Cdd:pfam12106   1 PDTKIDDKIRNQMGKRGWTEQEVRDVVSKPAKTSSTDDKRPN--PDGLRRNDPATVYGRKDGGYVVVNDRTGEVVQVSDR 78

                          90
                  ....*....|
gi 1245095770 544 NDSAWAVDGR 553
Cdd:pfam12106  79 NDPDWIPDSR 88
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 314-458 6.16e-37

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: 133.65  E-value: 6.16e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 314 LQSVAKAGGTVDMPVRLTSAAQESpsGKSQIAAMLTNGATVPKGVPVRAATLNAATGRYEvtvpakSTVPNTPPLILTWT 393
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRIIDDED--GRLKVYGVHTGGAGVPDRVPVRAATLDAETGSYE------FTADGAPGPTILWT 72

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1245095770 394 PATPPGSQNPSSTTPVVPQPVPVYEGATITPVQAEP-ESYPGV-PLDLDDLIVIFPVGSGVKPIYIM 458
Cdd:pfam06958  73 PASPPGNGPPSTSSPAAPPDTPVITGTPIPPVVGEViEPYPAPdERDFRDYILVFPADSGLPPLYVV 139
 
Name Accession Description Interval E-value
Colicin_E5 pfam12106
Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. ...
 464-553 8.26e-45

Colicin E5 ribonuclease domain; Colicin is a protein produced by bacteria with Col plasmids. Its function is to attack E. coli through actions on its inner membrane ion channels or through ribonuclease or deoxyribonuclease actions. The C terminal domain is the ribonuclease domain. It specifically cleaves tRNA anticodons which recognize codons in the form NAY (N:any nucleotide, A:adenosine, Y:pyrimidine) which corresponds to Tyrosine, Histidine, Asparagine and Aspartic Acid. E5-CRD can be referred to as an RNA restriction enzyme that specifically recognizes and cleaves single-stranded GU sequences.


Pssm-ID: 432335  Cd Length: 88  Bit Score: 153.05  E-value: 8.26e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 464 HDVVIDDKIREQIPIRGWTEVEIRDVIGKGATGSSSDKRRPNktIDGLGRNDSATVYGSPPNGYIVVNDRTGEIIQIADR 543
Cdd:pfam12106   1 PDTKIDDKIRNQMGKRGWTEQEVRDVVSKPAKTSSTDDKRPN--PDGLRRNDPATVYGRKDGGYVVVNDRTGEVVQVSDR 78

                          90
                  ....*....|
gi 1245095770 544 NDSAWAVDGR 553
Cdd:pfam12106  79 NDPDWIPDSR 88
Pyocin_S pfam06958
S-type Pyocin; This family represents a conserved region approximately 180 residues long ...
 314-458 6.16e-37

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: 133.65  E-value: 6.16e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 314 LQSVAKAGGTVDMPVRLTSAAQESpsGKSQIAAMLTNGATVPKGVPVRAATLNAATGRYEvtvpakSTVPNTPPLILTWT 393
Cdd:pfam06958   1 LEEIAAQMGTVDLPVRLRIIDDED--GRLKVYGVHTGGAGVPDRVPVRAATLDAETGSYE------FTADGAPGPTILWT 72

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1245095770 394 PATPPGSQNPSSTTPVVPQPVPVYEGATITPVQAEP-ESYPGV-PLDLDDLIVIFPVGSGVKPIYIM 458
Cdd:pfam06958  73 PASPPGNGPPSTSSPAAPPDTPVITGTPIPPVVGEViEPYPAPdERDFRDYILVFPADSGLPPLYVV 139
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 327-436 8.53e-03

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 38.98  E-value: 8.53e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1245095770 327 PVRLTSAAQESPSGKSQiAAMLTNGATVPKGVPVRAATLNAATGRYEVTVPAKSTVPNTPPLIL------TWTPATPPGS 400
Cdd:pfam03154 414 PLQLMPQSQQLPPPPAQ-PPVLTQSQSLPPPAASHPPTSGLHQVPSQSPFPQHPFVPGGPPPITppsgppTSTSSAMPGI 492

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1245095770 401 QNPSSTTPVVPQPVPVYEGATITPVQ---------AEPESYPGVP 436
Cdd:pfam03154 493 QPPSSASVSSSGPVPAAVSCPLPPVQikeealdeaEEPESPPPPP 537
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH