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Conserved domains on  [gi|1721959984|ref|XP_030212015|]
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uncharacterized protein LOC115543689 [Gadus morhua]

Protein Classification

transposase family protein( domain architecture ID 1750099)

transposase family protein might bind to the end of a transposon and catalyze the movement of the transposon to another part of the genome by a cut and paste mechanism or a replicative transposition mechanism

Gene Ontology:  GO:0046872|GO:0003676|GO:0006310
PubMed:  11774877

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
transpos_IS481 super family cl41329
IS481 family transposase; null
 87-256 1.21e-09

IS481 family transposase; null


The actual alignment was detected with superfamily member NF033577:

Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 59.14  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984  87 IAKQLGVSKRTIRRRMTEY------GLSVR----QTYSNITDEELCRVIFQFISNcPNAGIRTVTGHLNSLGIRV---TQ 153
Cdd:NF033577   19 AARRFGISRKTVYKWLKRYraggeeGLIDRsrrpHRSPRRTSPETEARILALRRE-LRLGPRRIAYELERQGPGVsrsTV 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984 154 HRV--RQGLkavdpvgNFLRGLQLNTVPRVPYSVPGPLSLWHID----GNHKLIRWkIVIHGGIDGYSRRImFLSANTNN 227
Cdd:NF033577   98 HRIlrRHGL-------SRLRALDRKTGKVKRYERAHPGELWHIDikklGRIPDVGR-LYLHTAIDDHSRFA-YAELYPDE 168

                         170       180       190
                  ....*....|....*....|....*....|
gi 1721959984 228 RASTVLQCFLTAVAEHGLP-QRVRSDKGGE 256
Cdd:NF033577  169 TAETAADFLRRAFAEHGIPiRRVLTDNGSE 198
AcoR super family cl34580
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
43-106 4.88e-04

Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];


The actual alignment was detected with superfamily member COG3284:

Pssm-ID: 442514 [Multi-domain]  Cd Length: 625  Bit Score: 42.58  E-value: 4.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1721959984  43 DLPDEQRVCQLLSMAIHELDGARMQAMSREQLLYLLESH-FKVGDIAKQLGVSKRTIRRRMTEYG 106
Cdd:COG3284   561 DLPDELRAELAAAAPAAAAPLTSLEEAERDAILRALRACgGNVSAAARALGISRSTLYRKLKRYG 625
 
Name Accession Description Interval E-value
transpos_IS481 NF033577
IS481 family transposase; null
 87-256 1.21e-09

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 59.14  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984  87 IAKQLGVSKRTIRRRMTEY------GLSVR----QTYSNITDEELCRVIFQFISNcPNAGIRTVTGHLNSLGIRV---TQ 153
Cdd:NF033577   19 AARRFGISRKTVYKWLKRYraggeeGLIDRsrrpHRSPRRTSPETEARILALRRE-LRLGPRRIAYELERQGPGVsrsTV 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984 154 HRV--RQGLkavdpvgNFLRGLQLNTVPRVPYSVPGPLSLWHID----GNHKLIRWkIVIHGGIDGYSRRImFLSANTNN 227
Cdd:NF033577   98 HRIlrRHGL-------SRLRALDRKTGKVKRYERAHPGELWHIDikklGRIPDVGR-LYLHTAIDDHSRFA-YAELYPDE 168

                         170       180       190
                  ....*....|....*....|....*....|
gi 1721959984 228 RASTVLQCFLTAVAEHGLP-QRVRSDKGGE 256
Cdd:NF033577  169 TAETAADFLRRAFAEHGIPiRRVLTDNGSE 198
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 188-267 4.90e-05

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: 41.92  E-value: 4.90e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984 188 PLSLWHIDGNH---KLIRWKIVIHGGIDGYSRRIMFLSANTNNRASTVLQCFLTAVAE-HGLPQRVRSDKGGE--NVEVA 261
Cdd:pfam00665   1 PNQLWQGDFTYiriPGGGGKLYLLVIVDDFSREILAWALSSEMDAELVLDALERAIAFrGGVPLIIHSDNGSEytSKAFR 80


                  ....*.
gi 1721959984 262 RFMLEH 267
Cdd:pfam00665  81 EFLKDL 86
AcoR COG3284
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
43-106 4.88e-04

Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];


Pssm-ID: 442514 [Multi-domain]  Cd Length: 625  Bit Score: 42.58  E-value: 4.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1721959984  43 DLPDEQRVCQLLSMAIHELDGARMQAMSREQLLYLLESH-FKVGDIAKQLGVSKRTIRRRMTEYG 106
Cdd:COG3284   561 DLPDELRAELAAAAPAAAAPLTSLEEAERDAILRALRACgGNVSAAARALGISRSTLYRKLKRYG 625
 
Name Accession Description Interval E-value
transpos_IS481 NF033577
IS481 family transposase; null
 87-256 1.21e-09

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 59.14  E-value: 1.21e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984  87 IAKQLGVSKRTIRRRMTEY------GLSVR----QTYSNITDEELCRVIFQFISNcPNAGIRTVTGHLNSLGIRV---TQ 153
Cdd:NF033577   19 AARRFGISRKTVYKWLKRYraggeeGLIDRsrrpHRSPRRTSPETEARILALRRE-LRLGPRRIAYELERQGPGVsrsTV 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984 154 HRV--RQGLkavdpvgNFLRGLQLNTVPRVPYSVPGPLSLWHID----GNHKLIRWkIVIHGGIDGYSRRImFLSANTNN 227
Cdd:NF033577   98 HRIlrRHGL-------SRLRALDRKTGKVKRYERAHPGELWHIDikklGRIPDVGR-LYLHTAIDDHSRFA-YAELYPDE 168

                         170       180       190
                  ....*....|....*....|....*....|
gi 1721959984 228 RASTVLQCFLTAVAEHGLP-QRVRSDKGGE 256
Cdd:NF033577  169 TAETAADFLRRAFAEHGIPiRRVLTDNGSE 198
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 188-267 4.90e-05

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: 41.92  E-value: 4.90e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984 188 PLSLWHIDGNH---KLIRWKIVIHGGIDGYSRRIMFLSANTNNRASTVLQCFLTAVAE-HGLPQRVRSDKGGE--NVEVA 261
Cdd:pfam00665   1 PNQLWQGDFTYiriPGGGGKLYLLVIVDDFSREILAWALSSEMDAELVLDALERAIAFrGGVPLIIHSDNGSEytSKAFR 80


                  ....*.
gi 1721959984 262 RFMLEH 267
Cdd:pfam00665  81 EFLKDL 86
AcoR COG3284
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
43-106 4.88e-04

Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];


Pssm-ID: 442514 [Multi-domain]  Cd Length: 625  Bit Score: 42.58  E-value: 4.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1721959984  43 DLPDEQRVCQLLSMAIHELDGARMQAMSREQLLYLLESH-FKVGDIAKQLGVSKRTIRRRMTEYG 106
Cdd:COG3284   561 DLPDELRAELAAAAPAAAAPLTSLEEAERDAILRALRACgGNVSAAARALGISRSTLYRKLKRYG 625
HTH_11 pfam08279
HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.
 73-102 1.29e-03

HTH domain; This family includes helix-turn-helix domains in a wide variety of proteins.


Pssm-ID: 429896 [Multi-domain]  Cd Length: 52  Bit Score: 36.64  E-value: 1.29e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1721959984  73 QLLYLLESHFKVGDIAKQLGVSKRTIRRRM 102
Cdd:pfam08279   5 QLLLEARGPISGQELAEKLGVSRRTIRRDI 34
HTH_50 pfam18024
Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription ...
 71-108 2.20e-03

Helix-turn-helix domain; The TyrR protein of Haemophilus influenzae is a 36-kD transcription factor whose major function is to control the expression of genes important in the biosynthesis and transport of aromatic amino acids. This entry represents the C-terminal helix-turn-helix DNA-binding domain of TyrR and related proteins.


Pssm-ID: 407862 [Multi-domain]  Cd Length: 50  Bit Score: 35.85  E-value: 2.20e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1721959984  71 REQLLYLLESHFKVGDIAKQLGVSKRTIRRRMTEYGLS 108
Cdd:pfam18024  13 RELIGAAYENYKSARKVAKALGLSHTTIANKMKRYGIS 50
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
3-111 4.23e-03

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 38.99  E-value: 4.23e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984   3 GLAHIADAIDEILRTEVGTDHLLLFLENISHVLTIEAAEGDLPDEQRVCQLLSMAIHELDGARMQAMSREQLLYLLESHF 82
Cdd:COG2207    90 LLVGLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLALLRALELLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL 169

                          90       100       110
                  ....*....|....*....|....*....|
gi 1721959984  83 KVGDIAKQLGVSKRTIRRRMT-EYGLSVRQ 111
Cdd:COG2207   170 TLEELARELGLSPRTLSRLFKeETGTSPKQ 199
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 28-108 5.12e-03

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 38.98  E-value: 5.12e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721959984  28 LENI---------SHVLTIEaaegDLPDE--QRVCQLLSMAIHELDGArMQAMSREQLLYLLESH-FKVGDIAKQLGVSK 95
Cdd:COG3829   361 LENVieravvlseGDVITPE----HLPEYllEEAEAASAAEEGSLKEA-LEEVEKELIEEALEKTgGNKSKAAKALGISR 435

                          90
                  ....*....|...
gi 1721959984  96 RTIRRRMTEYGLS 108
Cdd:COG3829   436 STLYRKLKKYGIK 448
 
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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