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Conserved domains on  [gi|2895|emb|CAA49737|]
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RAG3 [Kluyveromyces lactis]

Protein Classification

HTH_Tnp_Tc5 and DDE_1 domain-containing protein( domain architecture ID 10505188)

protein containing domains HTH_Tnp_Tc5, DDE_1, and PLN02217

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 200-393 7.18e-60

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: 199.92  E-value: 7.18e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       200 EVITVMLCANLSGTEKMNPLVIGRYENYNTFKNymgedshigtndvhlgEKTGKRFGIVYQSNRKSWLTSTVFHDWL-VA 278
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN----------------EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKW 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       279 FDKRLV-SDNRKIWIILDDSCSHRIVNL----NLQNILLIY--TSANSRFLPFNWGVLEEFKARYRVQQYKALIDLQKNI 351
Cdd:pfam03184  66 FDPRMReSPGRKVLLLLDGSGSHPTVELirscGLQNIFLVFlpANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLL 145

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2895       352 SQsltdfklltyEQSCLTMTNAFKFIKIAWDAIPKERINSNW 393
Cdd:pfam03184 146 SP----------PWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
73-136 9.91e-14

Tc5 transposase DNA-binding domain;


:

Pssm-ID: 460850  Cd Length: 63  Bit Score: 66.50  E-value: 9.91e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2895        73 NLLVHKILQEWVSQSIWNGIPVSLPIIQDTAQSVWhKIPAEYREGKGSFSHKWVANFLSRMNLS 136
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELA-QLAADLGEPDFKASKGWLDRFKKRHGIK 63
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 200-393 7.18e-60

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: 199.92  E-value: 7.18e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       200 EVITVMLCANLSGTEKMNPLVIGRYENYNTFKNymgedshigtndvhlgEKTGKRFGIVYQSNRKSWLTSTVFHDWL-VA 278
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN----------------EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKW 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       279 FDKRLV-SDNRKIWIILDDSCSHRIVNL----NLQNILLIY--TSANSRFLPFNWGVLEEFKARYRVQQYKALIDLQKNI 351
Cdd:pfam03184  66 FDPRMReSPGRKVLLLLDGSGSHPTVELirscGLQNIFLVFlpANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLL 145

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2895       352 SQsltdfklltyEQSCLTMTNAFKFIKIAWDAIPKERINSNW 393
Cdd:pfam03184 146 SP----------PWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
73-136 9.91e-14

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 66.50  E-value: 9.91e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2895        73 NLLVHKILQEWVSQSIWNGIPVSLPIIQDTAQSVWhKIPAEYREGKGSFSHKWVANFLSRMNLS 136
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELA-QLAADLGEPDFKASKGWLDRFKKRHGIK 63
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
70-137 7.62e-10

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 55.38  E-value: 7.62e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2895         70 RPNNLLVHKILQEWVSQSIWNGIPVSLPIIQDTAQSVWHKIPaeyrEGKGSFSHKWVANFLSRMNLST 137
Cdd:smart00674   1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLG----LENFKASKGWLTRFKKRHNIVK 64
 
Name Accession Description Interval E-value
DDE_1 pfam03184
DDE superfamily endonuclease; This family of proteins are related to pfam00665 and are ...
 200-393 7.18e-60

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: 199.92  E-value: 7.18e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       200 EVITVMLCANLSGTEKMNPLVIGRYENYNTFKNymgedshigtndvhlgEKTGKRFGIVYQSNRKSWLTSTVFHDWL-VA 278
Cdd:pfam03184   2 ERLTVMLCCNAAGSEKLPPLVIGKGKNPRAFKN----------------EKTPKPLPVEYKSNGKAWMTTSIFEEWLqKW 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2895       279 FDKRLV-SDNRKIWIILDDSCSHRIVNL----NLQNILLIY--TSANSRFLPFNWGVLEEFKARYRVQQYKALIDLQKNI 351
Cdd:pfam03184  66 FDPRMReSPGRKVLLLLDGSGSHPTVELirscGLQNIFLVFlpANSTSILQPLDQGVVSTFKANYRRQWLQYLLAGNNLL 145

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2895       352 SQsltdfklltyEQSCLTMTNAFKFIKIAWDAIPKERINSNW 393
Cdd:pfam03184 146 SP----------PWKKLTLLDALKWIAKAWNAVSPSTITSGF 177
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
73-136 9.91e-14

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 66.50  E-value: 9.91e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2895        73 NLLVHKILQEWVSQSIWNGIPVSLPIIQDTAQSVWhKIPAEYREGKGSFSHKWVANFLSRMNLS 136
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELA-QLAADLGEPDFKASKGWLDRFKKRHGIK 63
CENPB smart00674
Putative DNA-binding domain in centromere protein B, mouse jerky and transposases;
70-137 7.62e-10

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


Pssm-ID: 197828  Cd Length: 66  Bit Score: 55.38  E-value: 7.62e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2895         70 RPNNLLVHKILQEWVSQSIWNGIPVSLPIIQDTAQSVWHKIPaeyrEGKGSFSHKWVANFLSRMNLST 137
Cdd:smart00674   1 RRLYPLLEKALYEWILRQEALGIPISGEDIREKALEILQRLG----LENFKASKGWLTRFKKRHNIVK 64
 
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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