NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2043842498|ref|XP_030122779|]
View 

tigger transposable element-derived protein 3 isoform X2 [Taeniopygia guttata]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 386-546 2.95e-34

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: 128.66  E-value: 2.95e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 386 ERLTLLLCANASGSEKVPLRAVGDSPRPRCLRGVNLEQ-MPWSYRAGSMAGLTAALFAEWLQE-FNEGMRRR-GKSVVLL 462
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKwFDPRMRESpGRKVLLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 463 VAKHEAHPYLQ------LSNVRMVFVPPAAT-LAQPMDRGIAGDLKGHYRRRLLRWLPAERGAGQPS-----LLDVLHML 530
Cdd:pfam03184  82 LDGSGSHPTVElirscgLQNIFLVFLPANSTsILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPwkkltLLDALKWI 161

                         170
                  ....*....|....*.
gi 2043842498 531 AQAWGDVRPGLIAGCF 546
Cdd:pfam03184 162 AKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 super family cl12115
Tc5 transposase DNA-binding domain;
273-330 3.13e-07

Tc5 transposase DNA-binding domain;


The actual alignment was detected with superfamily member smart00674:

Pssm-ID: 472278  Cd Length: 66  Bit Score: 47.67  E-value: 3.13e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2043842498  273 AALEAALLRWVEGARAADLPVGRPLLQLRA----GQLVQPDPEPSGGWLARLGARHGLTSKK 330
Cdd:smart00674   5 PLLEKALYEWILRQEALGIPISGEDIREKAleilQRLGLENFKASKGWLTRFKKRHNIVKTK 66
CENP-B_N super family cl47877
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 203-255 3.59e-06

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: 44.32  E-value: 3.59e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2043842498 203 RKERKELSLTEKVRVLEML-EGPkvSQSELAKRFGVSQPQICRIIKNKERILSE 255
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYeEGE--SKASLARRFGVPASTLRRILKNKKKLLQQ 52
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 386-546 2.95e-34

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: 128.66  E-value: 2.95e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 386 ERLTLLLCANASGSEKVPLRAVGDSPRPRCLRGVNLEQ-MPWSYRAGSMAGLTAALFAEWLQE-FNEGMRRR-GKSVVLL 462
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKwFDPRMRESpGRKVLLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 463 VAKHEAHPYLQ------LSNVRMVFVPPAAT-LAQPMDRGIAGDLKGHYRRRLLRWLPAERGAGQPS-----LLDVLHML 530
Cdd:pfam03184  82 LDGSGSHPTVElirscgLQNIFLVFLPANSTsILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPwkkltLLDALKWI 161

                         170
                  ....*....|....*.
gi 2043842498 531 AQAWGDVRPGLIAGCF 546
Cdd:pfam03184 162 AKAWNAVSPSTITSGF 177
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
273-330 3.13e-07

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 47.67  E-value: 3.13e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2043842498  273 AALEAALLRWVEGARAADLPVGRPLLQLRA----GQLVQPDPEPSGGWLARLGARHGLTSKK 330
Cdd:smart00674   5 PLLEKALYEWILRQEALGIPISGEDIREKAleilQRLGLENFKASKGWLTRFKKRHNIVKTK 66
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 203-255 3.59e-06

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: 44.32  E-value: 3.59e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2043842498 203 RKERKELSLTEKVRVLEML-EGPkvSQSELAKRFGVSQPQICRIIKNKERILSE 255
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYeEGE--SKASLARRFGVPASTLRRILKNKKKLLQQ 52
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
275-327 7.10e-06

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 43.77  E-value: 7.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 275 LEAALLRWVEGARAADLPVGRPLLQLRAGQLVQ-------PDPEPSGGWLARLGARHGLT 327
Cdd:pfam03221   4 LEKALYEWILQLRARGIPITGPMIREKALELAQlaadlgePDFKASKGWLDRFKKRHGIK 63
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 219-252 1.95e-03

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 37.87  E-value: 1.95e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2043842498 219 EMLEGPKVSQSELAKRFGVSQPQICRIIKNKERI 252
Cdd:COG3093    16 EFLEPLGLSQTELAKALGVSRQRISEILNGKRAI 49
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 204-354 4.17e-03

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 39.83  E-value: 4.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 204 KERKELSLTEKVRVLEMLEGpKVSQSELAKRFGVSQPQICRIIKNkerilseWHRNG-----DPERKRKREGKDAALEAA 278
Cdd:COG3415    18 RKTKDAREARRLRAVLLLAE-GLSVREIAERLGVSRSTVYRWLKR-------YREGGlaglkDRPRGGRPSKLSDEQRER 89

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2043842498 279 LLRWVEGARAADLPV-GRPLLQLRAGQlvQPDPEPSGGWLARLGARHGLTSKKPPAEKGDAEQPTAEHWAGVVLPGL 354
Cdd:COG3415    90 LLELLREKSPDQGSRwTLAELAELLEE--EFGVEVSPSTVRRLLKRLGLSYKKPRPRAPKQDPEAVEKFKKELEALL 164
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 386-546 2.95e-34

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: 128.66  E-value: 2.95e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 386 ERLTLLLCANASGSEKVPLRAVGDSPRPRCLRGVNLEQ-MPWSYRAGSMAGLTAALFAEWLQE-FNEGMRRR-GKSVVLL 462
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKNEKTPKpLPVEYKSNGKAWMTTSIFEEWLQKwFDPRMRESpGRKVLLL 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 463 VAKHEAHPYLQ------LSNVRMVFVPPAAT-LAQPMDRGIAGDLKGHYRRRLLRWLPAERGAGQPS-----LLDVLHML 530
Cdd:pfam03184  82 LDGSGSHPTVElirscgLQNIFLVFLPANSTsILQPLDQGVVSTFKANYRRQWLQYLLAGNNLLSPPwkkltLLDALKWI 161

                         170
                  ....*....|....*.
gi 2043842498 531 AQAWGDVRPGLIAGCF 546
Cdd:pfam03184 162 AKAWNAVSPSTITSGF 177
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
273-330 3.13e-07

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 47.67  E-value: 3.13e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2043842498  273 AALEAALLRWVEGARAADLPVGRPLLQLRA----GQLVQPDPEPSGGWLARLGARHGLTSKK 330
Cdd:smart00674   5 PLLEKALYEWILRQEALGIPISGEDIREKAleilQRLGLENFKASKGWLTRFKKRHNIVKTK 66
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 203-255 3.59e-06

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: 44.32  E-value: 3.59e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2043842498 203 RKERKELSLTEKVRVLEML-EGPkvSQSELAKRFGVSQPQICRIIKNKERILSE 255
Cdd:pfam04218   1 RRKRRSLTLREKIAIIQRYeEGE--SKASLARRFGVPASTLRRILKNKKKLLQQ 52
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
275-327 7.10e-06

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 43.77  E-value: 7.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 275 LEAALLRWVEGARAADLPVGRPLLQLRAGQLVQ-------PDPEPSGGWLARLGARHGLT 327
Cdd:pfam03221   4 LEKALYEWILQLRARGIPITGPMIREKALELAQlaadlgePDFKASKGWLDRFKKRHGIK 63
VapI COG3093
Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense ...
 219-252 1.95e-03

Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain [Defense mechanisms];


Pssm-ID: 442327 [Multi-domain]  Cd Length: 87  Bit Score: 37.87  E-value: 1.95e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2043842498 219 EMLEGPKVSQSELAKRFGVSQPQICRIIKNKERI 252
Cdd:COG3093    16 EFLEPLGLSQTELAKALGVSRQRISEILNGKRAI 49
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 199-252 2.02e-03

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 38.08  E-value: 2.02e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2043842498 199 AAPPRKERKELSLTEKVRvlEMLEGPKVSQSELAKRFGVSQPQICRIIKNKERI 252
Cdd:COG3620     6 SRDVVTVSPDDTLGEALR--LMRKELGLSQLPVAELVGVSQSDILRIESGKRDP 57
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 204-354 4.17e-03

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 39.83  E-value: 4.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2043842498 204 KERKELSLTEKVRVLEMLEGpKVSQSELAKRFGVSQPQICRIIKNkerilseWHRNG-----DPERKRKREGKDAALEAA 278
Cdd:COG3415    18 RKTKDAREARRLRAVLLLAE-GLSVREIAERLGVSRSTVYRWLKR-------YREGGlaglkDRPRGGRPSKLSDEQRER 89

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2043842498 279 LLRWVEGARAADLPV-GRPLLQLRAGQlvQPDPEPSGGWLARLGARHGLTSKKPPAEKGDAEQPTAEHWAGVVLPGL 354
Cdd:COG3415    90 LLELLREKSPDQGSRwTLAELAELLEE--EFGVEVSPSTVRRLLKRLGLSYKKPRPRAPKQDPEAVEKFKKELEALL 164
 
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