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Conserved domains on  [gi|187281866|ref|NP_001119740|]
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tigger transposable element derived 5 [Rattus norvegicus]

Protein Classification

tigger transposable element derived family protein( domain architecture ID 10405131)

tigger transposable element derived family protein belongs to the pogo superfamily of DNA-mediated transposons

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DDE_3 super family cl46863
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 279-485 3.44e-18

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.


The actual alignment was detected with superfamily member pfam03184:

Pssm-ID: 481203  Cd Length: 177  Bit Score: 82.44  E-value: 3.44e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  279 SDRVTVLLAANLTGSHKLKPLVIGQLPDPPSLRHHNQDK-FPASYRYSPDAWLSRPLLRGWFFEEFVPGVkrylrRSCLQ 357
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKWFDPRM-----RESPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  358 QKAVLLVAHPPCPSWTTSMPAVEESEgtprqcqpellgspeelqtpdgaVRVLFLSrGNSrAHIPAPLEHGVVAAFKHLY 437
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRSCGLQN-----------------------IFLVFLP-ANS-TSILQPLDQGVVSTFKANY 130

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 187281866  438 KRELLRLAVscASGSPLD-FMRSFMLKDMLYLAGLSWDLVQAGSIERCW 485
Cdd:pfam03184 131 RRQWLQYLL--AGNNLLSpPWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
131-191 5.69e-18

Tc5 transposase DNA-binding domain;


:

Pssm-ID: 460850  Cd Length: 63  Bit Score: 78.06  E-value: 5.69e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187281866  131 EEIDRAVYSWFLTLRQHGVPLSGPVIQAQAEAFARQ-IYGPECTFKASHGWFWRWQKRHGIS 191
Cdd:pfam03221   2 PDLEKALYEWILQLRARGIPITGPMIREKALELAQLaADLGEPDFKASKGWLDRFKKRHGIK 63
CENP-B_N super family cl47877
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 62-111 5.73e-08

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


The actual alignment was detected with superfamily member pfam04218:

Pssm-ID: 461229  Cd Length: 53  Bit Score: 49.33  E-value: 5.73e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 187281866   62 RKAYSIKDKLQAIERVKGGERQASVCRDFGVPGGTLRGWLKDEPKLRWFL 111
Cdd:pfam04218   4 RRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLLQQL 53
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 279-485 3.44e-18

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere.


Pssm-ID: 367380  Cd Length: 177  Bit Score: 82.44  E-value: 3.44e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  279 SDRVTVLLAANLTGSHKLKPLVIGQLPDPPSLRHHNQDK-FPASYRYSPDAWLSRPLLRGWFFEEFVPGVkrylrRSCLQ 357
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKWFDPRM-----RESPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  358 QKAVLLVAHPPCPSWTTSMPAVEESEgtprqcqpellgspeelqtpdgaVRVLFLSrGNSrAHIPAPLEHGVVAAFKHLY 437
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRSCGLQN-----------------------IFLVFLP-ANS-TSILQPLDQGVVSTFKANY 130

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 187281866  438 KRELLRLAVscASGSPLD-FMRSFMLKDMLYLAGLSWDLVQAGSIERCW 485
Cdd:pfam03184 131 RRQWLQYLL--AGNNLLSpPWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
131-191 5.69e-18

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 78.06  E-value: 5.69e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187281866  131 EEIDRAVYSWFLTLRQHGVPLSGPVIQAQAEAFARQ-IYGPECTFKASHGWFWRWQKRHGIS 191
Cdd:pfam03221   2 PDLEKALYEWILQLRARGIPITGPMIREKALELAQLaADLGEPDFKASKGWLDRFKKRHGIK 63
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
131-192 4.22e-14

Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;


Pssm-ID: 197828  Cd Length: 66  Bit Score: 67.32  E-value: 4.22e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187281866   131 EEIDRAVYSWFLTLRQHGVPLSGPVIQAQAEAFARQIygPECTFKASHGWFWRWQKRHGISS 192
Cdd:smart00674   5 PLLEKALYEWILRQEALGIPISGEDIREKALEILQRL--GLENFKASKGWLTRFKKRHNIVK 64
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 62-111 5.73e-08

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 49.33  E-value: 5.73e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 187281866   62 RKAYSIKDKLQAIERVKGGERQASVCRDFGVPGGTLRGWLKDEPKLRWFL 111
Cdd:pfam04218   4 RRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLLQQL 53
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
62-135 3.73e-04

Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 39.91  E-value: 3.73e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 187281866  62 RKAYSIKDKLQAIERV-KGGERQASVCRDFGVPGGTLRGWLKdepKLRwfldqLGGEVGTQRKKMRLANEEEIDR 135
Cdd:COG2963    5 RRRYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVR---QYR-----EGGLGGFPGDGRTTPEQAEIRR 71
transpos_IS3 NF033516
IS3 family transposase;
70-135 2.94e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 40.24  E-value: 2.94e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 187281866  70 KLQAIERV-KGGERQASVCRDFGVPGGTLRGWLKdepklrWFLDQLGGEVGTQRKKMRLANEEEIDR 135
Cdd:NF033516   3 KLEAVREVlEGGKSVAEVARELGISPSTLYRWRK------KYRGGGEAADAGRLKELLTPEEEENRR 63
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 279-485 3.44e-18

DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Interestingly this family also includes the CENP-B protein. This domain in that protein appears to have lost the metal binding residues and is unlikely to have endonuclease activity. Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere.


Pssm-ID: 367380  Cd Length: 177  Bit Score: 82.44  E-value: 3.44e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  279 SDRVTVLLAANLTGSHKLKPLVIGQLPDPPSLRHHNQDK-FPASYRYSPDAWLSRPLLRGWFFEEFVPGVkrylrRSCLQ 357
Cdd:pfam03184   1 KERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKWFDPRM-----RESPG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187281866  358 QKAVLLVAHPPCPSWTTSMPAVEESEgtprqcqpellgspeelqtpdgaVRVLFLSrGNSrAHIPAPLEHGVVAAFKHLY 437
Cdd:pfam03184  76 RKVLLLLDGSGSHPTVELIRSCGLQN-----------------------IFLVFLP-ANS-TSILQPLDQGVVSTFKANY 130

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 187281866  438 KRELLRLAVscASGSPLD-FMRSFMLKDMLYLAGLSWDLVQAGSIERCW 485
Cdd:pfam03184 131 RRQWLQYLL--AGNNLLSpPWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
131-191 5.69e-18

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 78.06  E-value: 5.69e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187281866  131 EEIDRAVYSWFLTLRQHGVPLSGPVIQAQAEAFARQ-IYGPECTFKASHGWFWRWQKRHGIS 191
Cdd:pfam03221   2 PDLEKALYEWILQLRARGIPITGPMIREKALELAQLaADLGEPDFKASKGWLDRFKKRHGIK 63
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
131-192 4.22e-14

Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;


Pssm-ID: 197828  Cd Length: 66  Bit Score: 67.32  E-value: 4.22e-14
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187281866   131 EEIDRAVYSWFLTLRQHGVPLSGPVIQAQAEAFARQIygPECTFKASHGWFWRWQKRHGISS 192
Cdd:smart00674   5 PLLEKALYEWILRQEALGIPISGEDIREKALEILQRL--GLENFKASKGWLTRFKKRHNIVK 64
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 62-111 5.73e-08

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 49.33  E-value: 5.73e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 187281866   62 RKAYSIKDKLQAIERVKGGERQASVCRDFGVPGGTLRGWLKDEPKLRWFL 111
Cdd:pfam04218   4 RRSLTLREKIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKKLLQQL 53
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
62-135 3.73e-04

Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 39.91  E-value: 3.73e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 187281866  62 RKAYSIKDKLQAIERV-KGGERQASVCRDFGVPGGTLRGWLKdepKLRwfldqLGGEVGTQRKKMRLANEEEIDR 135
Cdd:COG2963    5 RRRYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVR---QYR-----EGGLGGFPGDGRTTPEQAEIRR 71
transpos_IS3 NF033516
IS3 family transposase;
70-135 2.94e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 40.24  E-value: 2.94e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 187281866  70 KLQAIERV-KGGERQASVCRDFGVPGGTLRGWLKdepklrWFLDQLGGEVGTQRKKMRLANEEEIDR 135
Cdd:NF033516   3 KLEAVREVlEGGKSVAEVARELGISPSTLYRWRK------KYRGGGEAADAGRLKELLTPEEEENRR 63
 
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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