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Conserved domains on  [gi|1823122139|gb|QIP22793|]
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IS21 family transposase (plasmid) [Enterobacter kobei]

Protein Classification

IS21 family transposase( domain architecture ID 1750055)

IS21 family transposase binds to the end of a transposon and catalyzes 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:0003677|GO:0032196|GO:0015074
PubMed:  11315188

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
transpos_IS21 NF033546
IS21 family transposase;
10-303 4.69e-108

IS21 family transposase;


:

Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 317.23  E-value: 4.69e-108
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRD---PSVARYQPREPRPTKLGPFESYLRQRVEQ-AHPIWLPATVLNREIR 85
Cdd:NF033546    1 IRLLFRQGLSIREIARELGISRNTVRKYLRRaglDEPPKYERRPPRPSKLDPFEPYIPDWLEAhLRKPGVTATLLWEELR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  86 AQGYGGGLSLLRAFLATLKPARREAGPAVRFETEPGRQLQADF----VVLRRARSP-MSAFVATLGYSRMTFVTFVPDES 160
Cdd:NF033546   81 AEGYPGSYSTVRRYVRRWRAEQGPAKVFVRLEHAPGEQAQVDFgeatVVVTGGTGKiLHVFVAVLGYSRYTYVEATPSES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 161 FESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERDAYGDgkHRFHPGLLQLADDLGFRIRLCRPYRAQTKGKVERFNRYF 240
Cdd:NF033546  161 QEDLLDGHQRAFEFFGGVPREIVYDNLKTAVDKRDRYEE--PRLNPRFAAFAAHYGFEPRPCRPYRPQEKGKVERAVGYV 238

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1823122139 241 RESFYNPLLTRMKgtglllDCAAANRRVRDWLADEANVRVHATLNERPIDRWRQEREHLQPLP 303
Cdd:NF033546  239 RRWFLRLRGRRFE------SLAELNAALAEWLAELANQRPHGTTGGSPAERFEEERPALQPLP 295
 
Name Accession Description Interval E-value
transpos_IS21 NF033546
IS21 family transposase;
10-303 4.69e-108

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 317.23  E-value: 4.69e-108
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRD---PSVARYQPREPRPTKLGPFESYLRQRVEQ-AHPIWLPATVLNREIR 85
Cdd:NF033546    1 IRLLFRQGLSIREIARELGISRNTVRKYLRRaglDEPPKYERRPPRPSKLDPFEPYIPDWLEAhLRKPGVTATLLWEELR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  86 AQGYGGGLSLLRAFLATLKPARREAGPAVRFETEPGRQLQADF----VVLRRARSP-MSAFVATLGYSRMTFVTFVPDES 160
Cdd:NF033546   81 AEGYPGSYSTVRRYVRRWRAEQGPAKVFVRLEHAPGEQAQVDFgeatVVVTGGTGKiLHVFVAVLGYSRYTYVEATPSES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 161 FESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERDAYGDgkHRFHPGLLQLADDLGFRIRLCRPYRAQTKGKVERFNRYF 240
Cdd:NF033546  161 QEDLLDGHQRAFEFFGGVPREIVYDNLKTAVDKRDRYEE--PRLNPRFAAFAAHYGFEPRPCRPYRPQEKGKVERAVGYV 238

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1823122139 241 RESFYNPLLTRMKgtglllDCAAANRRVRDWLADEANVRVHATLNERPIDRWRQEREHLQPLP 303
Cdd:NF033546  239 RRWFLRLRGRRFE------SLAELNAALAEWLAELANQRPHGTTGGSPAERFEEERPALQPLP 295
COG4584 COG4584
Transposase [Mobilome: prophages, transposons];
1-303 3.82e-92

Transposase [Mobilome: prophages, transposons];


Pssm-ID: 443641 [Multi-domain]  Cd Length: 484  Bit Score: 283.27  E-value: 3.82e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139   1 MLTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYLRDPSV--ARYQPREPRPTKLGPFESYLRQRVEQAHpiWLPAT 78
Cdd:COG4584     1 MLTMEQIREIRRLLREGLSIREIARELGISRNTVRKYLRRAEEwpELYPRRRPRPSKLDPYKEYIDEWLEEGP--RVTAK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  79 VLNREIRAQ-GYGGGLSLLRAFLATLKPaRREAGPAVRFETEPGRQLQADF-----VVLRRARSPMSAFVATLGYSRMTF 152
Cdd:COG4584    79 RIWEELKEEhGYTGSYSTVRRYVRRLRP-EYPKEAFVRLEHPPGEQAQVDWgeatvPPITGERRKVYVFVAVLGYSRYKY 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 153 VTFVPDESFESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERDAYgdgKHRFHPGLLQLADDLGFRIRLCRPYRAQTKGK 232
Cdd:COG4584   158 VEAYPSQTQEDLLEAHVRAFEFFGGVPREIVYDNLKTAVTKADRG---EPVLNERFLAFAAHYGFEPRPCRPRRPKEKGK 234

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1823122139 233 VERFNRYFRESFYNPLLTrmkgtglLLDCAAANRRVRDWLADEANVRVHATLNERPIDRWRQEREHLQPLP 303
Cdd:COG4584   235 VENAVGYVRRNFLAPRPR-------FTSLEELNAALLEWLERVANRRIHGTTGESPAERFAEEEEALLPLP 298
transpos_IS481 NF033577
IS481 family transposase; null
 10-292 3.29e-23

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 97.28  E-value: 3.29e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRdpsvaRY--------QPREPRP----TKLGP--FESYLRQRVEQAHPiwl 75
Cdd:NF033577    6 VRLVLEDGWSVREAARRFGISRKTVYKWLK-----RYraggeeglIDRSRRPhrspRRTSPetEARILALRRELRLG--- 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  76 PATVLNrEIRAQGYGGGLS-----LLRAFLATLKPARREAGPAVRFETE-PGRQLQADFVVLRRARSPMSAFVATL--GY 147
Cdd:NF033577   78 PRRIAY-ELERQGPGVSRStvhriLRRHGLSRLRALDRKTGKVKRYERAhPGELWHIDIKKLGRIPDVGRLYLHTAidDH 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 148 SRMTFVTFVPDESFESVRDSLLLAFDYLGGVPREVLFDNMKtvvlerdAYGDGKHRFHpgllQLADDLGFRIRLCRPYRA 227
Cdd:NF033577  157 SRFAYAELYPDETAETAADFLRRAFAEHGIPIRRVLTDNGS-------EFRSRAHGFE----LALAELGIEHRRTRPYHP 225

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1823122139 228 QTKGKVERFNRYFRESFYNPLLTRmkgtglllDCAAANRRVRDWLADEANVRVHATLNER-PIDRW 292
Cdd:NF033577  226 QTNGKVERFHRTLKDEFAYARPYE--------SLAELQAALDEWLHHYNHHRPHSALGGKtPAERF 283
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 120-226 6.16e-15

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: 69.65  E-value: 6.16e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 120 PGRQLQADFVVLRRA--RSPMSAFVATLGYSRMTFVTFVPDE-SFESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERda 196
Cdd:pfam00665   1 PNQLWQGDFTYIRIPggGGKLYLLVIVDDFSREILAWALSSEmDAELVLDALERAIAFRGGVPLIIHSDNGSEYTSKA-- 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 1823122139 197 ygdgkhrfhpgLLQLADDLGFRIRLCRPYR 226
Cdd:pfam00665  79 -----------FREFLKDLGIKPSFSRPGN 97
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 2-38 4.28e-07

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 45.78  E-value: 4.28e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1823122139   2 LTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYL 38
Cdd:cd00569     6 LTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRYL 42
transpos_IS1 NF033558
IS1 family transposase; Proteins of this family are DDE transposases encoded by the IS1 family ...
 9-53 1.36e-04

IS1 family transposase; Proteins of this family are DDE transposases encoded by the IS1 family elements usually through a translational frameshift mechanism.


Pssm-ID: 468085 [Multi-domain]  Cd Length: 199  Bit Score: 42.26  E-value: 1.36e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1823122139   9 EIRVLARQGHSIRHIARTLGVSRNTVRRYLRDPSVARYQPREPRP 53
Cdd:NF033558   47 KILQLYLNGMGFRAIARVLGVSHNTVLRWLKKLGPRQVTPEPLKP 91
transpos_IS630 NF033545
IS630 family transposase;
10-72 1.57e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 43.01  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRD-----PSVARYQPREPRPTKLGP-FESYLRQRVEQAHP 72
Cdd:NF033545    5 ILLLAAEGLSITEIAERLGVSRSTVYRWLKRfneggLEGLLDKPRPGRPRKLLSeQQAELLALLLEEPP 73
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 9-39 2.59e-03

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 35.58  E-value: 2.59e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1823122139    9 EIRVL--ARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:smart00421   8 EREVLrlLAEGLTNKEIAERLGISEKTVKTHLS 40
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
9-39 6.94e-03

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 37.39  E-value: 6.94e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1823122139   9 EIRVLARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:PRK13413  164 KIKKLLDKGTSKSEIARKLGVSRTTLARFLK 194
 
Name Accession Description Interval E-value
transpos_IS21 NF033546
IS21 family transposase;
10-303 4.69e-108

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 317.23  E-value: 4.69e-108
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRD---PSVARYQPREPRPTKLGPFESYLRQRVEQ-AHPIWLPATVLNREIR 85
Cdd:NF033546    1 IRLLFRQGLSIREIARELGISRNTVRKYLRRaglDEPPKYERRPPRPSKLDPFEPYIPDWLEAhLRKPGVTATLLWEELR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  86 AQGYGGGLSLLRAFLATLKPARREAGPAVRFETEPGRQLQADF----VVLRRARSP-MSAFVATLGYSRMTFVTFVPDES 160
Cdd:NF033546   81 AEGYPGSYSTVRRYVRRWRAEQGPAKVFVRLEHAPGEQAQVDFgeatVVVTGGTGKiLHVFVAVLGYSRYTYVEATPSES 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 161 FESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERDAYGDgkHRFHPGLLQLADDLGFRIRLCRPYRAQTKGKVERFNRYF 240
Cdd:NF033546  161 QEDLLDGHQRAFEFFGGVPREIVYDNLKTAVDKRDRYEE--PRLNPRFAAFAAHYGFEPRPCRPYRPQEKGKVERAVGYV 238

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1823122139 241 RESFYNPLLTRMKgtglllDCAAANRRVRDWLADEANVRVHATLNERPIDRWRQEREHLQPLP 303
Cdd:NF033546  239 RRWFLRLRGRRFE------SLAELNAALAEWLAELANQRPHGTTGGSPAERFEEERPALQPLP 295
COG4584 COG4584
Transposase [Mobilome: prophages, transposons];
1-303 3.82e-92

Transposase [Mobilome: prophages, transposons];


Pssm-ID: 443641 [Multi-domain]  Cd Length: 484  Bit Score: 283.27  E-value: 3.82e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139   1 MLTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYLRDPSV--ARYQPREPRPTKLGPFESYLRQRVEQAHpiWLPAT 78
Cdd:COG4584     1 MLTMEQIREIRRLLREGLSIREIARELGISRNTVRKYLRRAEEwpELYPRRRPRPSKLDPYKEYIDEWLEEGP--RVTAK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  79 VLNREIRAQ-GYGGGLSLLRAFLATLKPaRREAGPAVRFETEPGRQLQADF-----VVLRRARSPMSAFVATLGYSRMTF 152
Cdd:COG4584    79 RIWEELKEEhGYTGSYSTVRRYVRRLRP-EYPKEAFVRLEHPPGEQAQVDWgeatvPPITGERRKVYVFVAVLGYSRYKY 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 153 VTFVPDESFESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERDAYgdgKHRFHPGLLQLADDLGFRIRLCRPYRAQTKGK 232
Cdd:COG4584   158 VEAYPSQTQEDLLEAHVRAFEFFGGVPREIVYDNLKTAVTKADRG---EPVLNERFLAFAAHYGFEPRPCRPRRPKEKGK 234

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1823122139 233 VERFNRYFRESFYNPLLTrmkgtglLLDCAAANRRVRDWLADEANVRVHATLNERPIDRWRQEREHLQPLP 303
Cdd:COG4584   235 VENAVGYVRRNFLAPRPR-------FTSLEELNAALLEWLERVANRRIHGTTGESPAERFAEEEEALLPLP 298
transpos_IS481 NF033577
IS481 family transposase; null
 10-292 3.29e-23

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 97.28  E-value: 3.29e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRdpsvaRY--------QPREPRP----TKLGP--FESYLRQRVEQAHPiwl 75
Cdd:NF033577    6 VRLVLEDGWSVREAARRFGISRKTVYKWLK-----RYraggeeglIDRSRRPhrspRRTSPetEARILALRRELRLG--- 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  76 PATVLNrEIRAQGYGGGLS-----LLRAFLATLKPARREAGPAVRFETE-PGRQLQADFVVLRRARSPMSAFVATL--GY 147
Cdd:NF033577   78 PRRIAY-ELERQGPGVSRStvhriLRRHGLSRLRALDRKTGKVKRYERAhPGELWHIDIKKLGRIPDVGRLYLHTAidDH 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 148 SRMTFVTFVPDESFESVRDSLLLAFDYLGGVPREVLFDNMKtvvlerdAYGDGKHRFHpgllQLADDLGFRIRLCRPYRA 227
Cdd:NF033577  157 SRFAYAELYPDETAETAADFLRRAFAEHGIPIRRVLTDNGS-------EFRSRAHGFE----LALAELGIEHRRTRPYHP 225

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1823122139 228 QTKGKVERFNRYFRESFYNPLLTRmkgtglllDCAAANRRVRDWLADEANVRVHATLNER-PIDRW 292
Cdd:NF033577  226 QTNGKVERFHRTLKDEFAYARPYE--------SLAELQAALDEWLHHYNHHRPHSALGGKtPAERF 283
Tra8 COG2826
Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];
2-300 5.14e-16

Transposase and inactivated derivatives, IS30 family [Mobilome: prophages, transposons];


Pssm-ID: 442074 [Multi-domain]  Cd Length: 325  Bit Score: 77.61  E-value: 5.14e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139   2 LTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYLR--------DPSVA--RYQPREPRPTKLGPF----------ES 61
Cdd:COG2826     7 LTLEEREEIEALLKAGLSVREIARRLGRSPSTISRELKrnsgrrgyRAEGAqrLAEDRRRRPKRKRKLattpelrayvEE 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139  62 YLRQ-----------RVEQAHPIWLPATVLNREIRAQGYGGGL-SLLRAFLATLKPARREAGPAVRF------------- 116
Cdd:COG2826    87 KLRKkwspeqiagrlKREDDPGMRVSHETIYRYIYAGGLRKDLyRPLRRKRKRRRPRGRTRKRRGKIpdrrsiserpaev 166

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 117 --ETEPGrQLQADFVVLRRARSpmsaFVATLG--YSRMTFVTFVPDESFESVRDSLLLAFDYLGGVPRE-VLFDNmktvv 191
Cdd:COG2826   167 edRAEPG-HWEGDLIIGKRGKS----ALLTLVerKSRFVILLKLPDKTAESVADALIRLLRKLPAFLRKsITTDN----- 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 192 lerdaygdGK----HRfhpgllQLADDLGFRIRLCRPYRAQTKGKVERFNRYFRESFYnplltrmKGTGLLLDCAAANRR 267
Cdd:COG2826   237 --------GKefadHK------EIEAALGIKVYFADPYSPWQRGTNENTNGLLRQYFP-------KGTDFSTVTQEELDA 295

                         330       340       350
                  ....*....|....*....|....*....|....
gi 1823122139 268 VRDWLadeaNVRVHATLN-ERPIDRWRQEREHLQ 300
Cdd:COG2826   296 IADRL----NNRPRKCLGyKTPAEVFAEELAALA 325
rve pfam00665
Integrase core domain; Integrase mediates integration of a DNA copy of the viral genome into ...
 120-226 6.16e-15

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: 69.65  E-value: 6.16e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139 120 PGRQLQADFVVLRRA--RSPMSAFVATLGYSRMTFVTFVPDE-SFESVRDSLLLAFDYLGGVPREVLFDNMKTVVLERda 196
Cdd:pfam00665   1 PNQLWQGDFTYIRIPggGGKLYLLVIVDDFSREILAWALSSEmDAELVLDALERAIAFRGGVPLIIHSDNGSEYTSKA-- 78

                          90       100       110
                  ....*....|....*....|....*....|
gi 1823122139 197 ygdgkhrfhpgLLQLADDLGFRIRLCRPYR 226
Cdd:pfam00665  79 -----------FREFLKDLGIKPSFSRPGN 97
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 2-38 4.28e-07

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 45.78  E-value: 4.28e-07
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1823122139   2 LTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYL 38
Cdd:cd00569     6 LTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRYL 42
HTH_38 pfam13936
Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is ...
 2-39 5.76e-05

Helix-turn-helix domain; This helix-turn-helix domain is often found in transferases and is likely to be DNA-binding.


Pssm-ID: 433591 [Multi-domain]  Cd Length: 44  Bit Score: 39.80  E-value: 5.76e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1823122139   2 LTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:pfam13936   5 LSLEEREEIARLLAEGLSLREIARRLGRSPSTISRELR 42
HTH_22 pfam13309
HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding ...
 1-39 1.07e-04

HTH domain; This domain is a helix-turn-helix domain that is likely to act as a DNA-binding domain.


Pssm-ID: 463841 [Multi-domain]  Cd Length: 63  Bit Score: 39.75  E-value: 1.07e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1823122139   1 MLTQEQTVEI-RVLARQG-----HSIRHIARTLGVSRNTVRRYLR 39
Cdd:pfam13309  19 RLTKEEKREIvRALDEKGafllkGAVEKVAKRLGVSRATVYNYLR 63
rve_3 pfam13683
Integrase core domain;
215-288 1.18e-04

Integrase core domain;


Pssm-ID: 433402 [Multi-domain]  Cd Length: 67  Bit Score: 39.89  E-value: 1.18e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1823122139 215 LGFRIRLCRPYRAQTKGKVERFNRYFRESFYNPLLTRmkgtglllDCAAANRRVRDWLADEANVRVHATLNERP 288
Cdd:pfam13683   1 LGIEISYIAPGKPMQNGLVESFNGTLRDECLNEHLFS--------SLAEARALLAAWREDYNTERPHSSLGYRT 66
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
2-40 1.30e-04

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 38.88  E-value: 1.30e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1823122139   2 LTQEQTVEIRVLARQGHSIRHIARTLGVSRNTVRRYLRD 40
Cdd:pfam02796   6 LNEEDINEVITLLEEGISIKQIAKIFGISRSTVYRYLAA 44
transpos_IS1 NF033558
IS1 family transposase; Proteins of this family are DDE transposases encoded by the IS1 family ...
 9-53 1.36e-04

IS1 family transposase; Proteins of this family are DDE transposases encoded by the IS1 family elements usually through a translational frameshift mechanism.


Pssm-ID: 468085 [Multi-domain]  Cd Length: 199  Bit Score: 42.26  E-value: 1.36e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1823122139   9 EIRVLARQGHSIRHIARTLGVSRNTVRRYLRDPSVARYQPREPRP 53
Cdd:NF033558   47 KILQLYLNGMGFRAIARVLGVSHNTVLRWLKKLGPRQVTPEPLKP 91
transpos_IS630 NF033545
IS630 family transposase;
10-72 1.57e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 43.01  E-value: 1.57e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1823122139  10 IRVLARQGHSIRHIARTLGVSRNTVRRYLRD-----PSVARYQPREPRPTKLGP-FESYLRQRVEQAHP 72
Cdd:NF033545    5 ILLLAAEGLSITEIAERLGVSRSTVYRWLKRfneggLEGLLDKPRPGRPRKLLSeQQAELLALLLEEPP 73
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 9-97 3.98e-04

Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and repair];


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 41.93  E-value: 3.98e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1823122139   9 EIRVLARQGHSIRHIARTL---GV---SRNTVRRYLRDPSVARYQPREPRPTKLGPFESYLRQRVEQAHPIWLPATVLNR 82
Cdd:COG1961   176 RIFELYLEGKSLREIARELnerGIptwSRSTVYRILKNPVYGGLGVYGLGKKIVTEKGERKVRRRRKRRVIREEEERVRR 255

                          90
                  ....*....|....*
gi 1823122139  83 EIRAQGYGGGLSLLR 97
Cdd:COG1961   256 RELAAKRARRLLKGK 270
YheO COG2964
Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains ...
 1-39 5.90e-04

Predicted transcriptional regulator YheO, contains PAS and DNA-binding HTH domains [Transcription];


Pssm-ID: 442204 [Multi-domain]  Cd Length: 214  Bit Score: 40.60  E-value: 5.90e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1823122139   1 MLTQEQTVEI-RVLARQG-----HSIRHIARTLGVSRNTVRRYLR 39
Cdd:COG2964   166 ALSKEEKIEIvRELDEKGiflikGAVDYVAKRLGISRATVYNYLR 210
HTH_23 pfam13384
Homeodomain-like domain;
13-39 1.52e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 36.09  E-value: 1.52e-03
                          10        20
                  ....*....|....*....|....*..
gi 1823122139  13 LARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:pfam13384  13 LLAEGLSVKEIAELLGVSRRTVYRWLK 39
HTH_LUXR smart00421
helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon
 9-39 2.59e-03

helix_turn_helix, Lux Regulon; lux regulon (activates the bioluminescence operon


Pssm-ID: 197715 [Multi-domain]  Cd Length: 58  Bit Score: 35.58  E-value: 2.59e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1823122139    9 EIRVL--ARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:smart00421   8 EREVLrlLAEGLTNKEIAERLGISEKTVKTHLS 40
CitB COG2197
DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal ...
 1-39 5.91e-03

DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 441799 [Multi-domain]  Cd Length: 131  Bit Score: 36.41  E-value: 5.91e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1823122139   1 MLTQEQTvEIRVLARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:COG2197    69 LLTPRER-EVLRLLAEGLSNKEIAERLGISERTVKTHVS 106
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
9-39 6.94e-03

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 37.39  E-value: 6.94e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1823122139   9 EIRVLARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:PRK13413  164 KIKKLLDKGTSKSEIARKLGVSRTTLARFLK 194
InsA COG3677
Transposase InsA [Mobilome: prophages, transposons];
13-39 7.13e-03

Transposase InsA [Mobilome: prophages, transposons];


Pssm-ID: 442893 [Multi-domain]  Cd Length: 241  Bit Score: 37.54  E-value: 7.13e-03
                          10        20
                  ....*....|....*....|....*..
gi 1823122139  13 LARQGHSIRHIARTLGVSRNTVRRYLR 39
Cdd:COG3677    71 LLLNGISLRQIARVLGVSYKTVWRWLH 97
 
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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