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Conserved domains on  [gi|1020158233|gb|AMZ00021|]
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TnsB [Tn7 delivery vector pMRE107_PnptII_mTq2]

Protein Classification

transposase family protein( domain architecture ID 229386)

transposase family protein may bind to the end of a transposon and catalyze the movement of the transposon to another part of the genome

Gene Ontology:  GO:0003677|GO:0006313
PubMed:  11774877

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rve super family cl47583
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 266-388 1.99e-04

Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.


The actual alignment was detected with superfamily member pfam00665:

Pssm-ID: 459897 [Multi-domain]  Cd Length: 98  Bit Score: 40.76  E-value: 1.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020158233 266 PGSRYEIDATiadiylvdhHDRQKIIGRPT-LYIVIDVFSRMITGFYIGFEnpsyvvamqafvnacSDKTAICAQHDIEI 344
Cdd:pfam00665   1 PNQLWQGDFT---------YIRIPGGGGKLyLLVIVDDFSREILAWALSSE---------------MDAELVLDALERAI 56

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1020158233 345 SSSDwpcvGLPDVLLADRG-ELMSHQVEALVSSFNVRVESAPPRR 388
Cdd:pfam00665  57 AFRG----GVPLIIHSDNGsEYTSKAFREFLKDLGIKPSFSRPGN 97
Uup super family cl33905
ATPase components of ABC transporters with duplicated ATPase domains [General function ...
 581-652 2.20e-03

ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only];


The actual alignment was detected with superfamily member COG0488:

Pssm-ID: 440254 [Multi-domain]  Cd Length: 520  Bit Score: 41.20  E-value: 2.20e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1020158233 581 SFWEVWDIQAQEKHNKANAKQDEltKRRELEAFIQQTIQKANKltpsTTEPKStRIKQI-KTNKKEAVTSERK 652
Cdd:COG0488   235 SAYLEQRAERLEQEAAAYAKQQK--KIAKEEEFIRRFRAKARK----AKQAQS-RIKALeKLEREEPPRRDKT 300
 
Name Accession Description Interval E-value
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 266-388 1.99e-04

Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.


Pssm-ID: 459897 [Multi-domain]  Cd Length: 98  Bit Score: 40.76  E-value: 1.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020158233 266 PGSRYEIDATiadiylvdhHDRQKIIGRPT-LYIVIDVFSRMITGFYIGFEnpsyvvamqafvnacSDKTAICAQHDIEI 344
Cdd:pfam00665   1 PNQLWQGDFT---------YIRIPGGGGKLyLLVIVDDFSREILAWALSSE---------------MDAELVLDALERAI 56

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1020158233 345 SSSDwpcvGLPDVLLADRG-ELMSHQVEALVSSFNVRVESAPPRR 388
Cdd:pfam00665  57 AFRG----GVPLIIHSDNGsEYTSKAFREFLKDLGIKPSFSRPGN 97
Uup COG0488
ATPase components of ABC transporters with duplicated ATPase domains [General function ...
 581-652 2.20e-03

ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only];


Pssm-ID: 440254 [Multi-domain]  Cd Length: 520  Bit Score: 41.20  E-value: 2.20e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1020158233 581 SFWEVWDIQAQEKHNKANAKQDEltKRRELEAFIQQTIQKANKltpsTTEPKStRIKQI-KTNKKEAVTSERK 652
Cdd:COG0488   235 SAYLEQRAERLEQEAAAYAKQQK--KIAKEEEFIRRFRAKARK----AKQAQS-RIKALeKLEREEPPRRDKT 300
 
Name Accession Description Interval E-value
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 266-388 1.99e-04

Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain pfam02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain pfam00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyzes the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site.


Pssm-ID: 459897 [Multi-domain]  Cd Length: 98  Bit Score: 40.76  E-value: 1.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1020158233 266 PGSRYEIDATiadiylvdhHDRQKIIGRPT-LYIVIDVFSRMITGFYIGFEnpsyvvamqafvnacSDKTAICAQHDIEI 344
Cdd:pfam00665   1 PNQLWQGDFT---------YIRIPGGGGKLyLLVIVDDFSREILAWALSSE---------------MDAELVLDALERAI 56

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1020158233 345 SSSDwpcvGLPDVLLADRG-ELMSHQVEALVSSFNVRVESAPPRR 388
Cdd:pfam00665  57 AFRG----GVPLIIHSDNGsEYTSKAFREFLKDLGIKPSFSRPGN 97
Uup COG0488
ATPase components of ABC transporters with duplicated ATPase domains [General function ...
 581-652 2.20e-03

ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only];


Pssm-ID: 440254 [Multi-domain]  Cd Length: 520  Bit Score: 41.20  E-value: 2.20e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1020158233 581 SFWEVWDIQAQEKHNKANAKQDEltKRRELEAFIQQTIQKANKltpsTTEPKStRIKQI-KTNKKEAVTSERK 652
Cdd:COG0488   235 SAYLEQRAERLEQEAAAYAKQQK--KIAKEEEFIRRFRAKARK----AKQAQS-RIKALeKLEREEPPRRDKT 300
 
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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