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Conserved domains on  [gi|518397994|ref|WP_019568201|]
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transposase, partial [Thioalkalivibrio sp. ALMg13-2]

Protein Classification

transposase( domain architecture ID 10478959)

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:0046872|GO:0006313|GO:0003677|GO:0004803|GO:0032196|GO:0015074|GO:0006310
PubMed:  11774877|20215432|20885819

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-71 6.56e-18

Transposase; Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.


:

Pssm-ID: 426308 [Multi-domain]  Cd Length: 75  Bit Score: 70.08  E-value: 6.56e-18
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 518397994   2 RKSRFTESQIVQTLKQV-EGGRKVKDVCREIGVSEATYYQWKSKY-GGMEAADVR-RLKELEDENNRLKRMYA 71
Cdd:pfam01527  3 KRRRFSEEFKLRAVKEVlEPGRTVKEVARRHGVSPNTLYQWRRQYeGGMGASPARpRLTALEEENRRLKRELA 75
 
Name Accession Description Interval E-value
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-71 6.56e-18

Transposase; Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.


Pssm-ID: 426308 [Multi-domain]  Cd Length: 75  Bit Score: 70.08  E-value: 6.56e-18
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 518397994   2 RKSRFTESQIVQTLKQV-EGGRKVKDVCREIGVSEATYYQWKSKY-GGMEAADVR-RLKELEDENNRLKRMYA 71
Cdd:pfam01527  3 KRRRFSEEFKLRAVKEVlEPGRTVKEVARRHGVSPNTLYQWRRQYeGGMGASPARpRLTALEEENRRLKRELA 75
transpos_IS3 NF033516
IS3 family transposase;
10-73 1.43e-16

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 71.44  E-value: 1.43e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 518397994  10 QIVQTLKQV-EGGRKVKDVCREIGVSEATYYQWKSKY-GGMEAADVRRLKEL----EDENNRLKRMYAEL 73
Cdd:NF033516   2 FKLEAVREVlEGGKSVAEVARELGISPSTLYRWRKKYrGGGEAADAGRLKELltpeEEENRRLKRELAEL 71
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
18-73 4.72e-05

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 37.60  E-value: 4.72e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 518397994 18 VEGGRKVKDVCREIGVSEATYYQWKSKY---GGMEAADVRRLKELEDENNRLKRMYAEL 73
Cdd:COG2963  21 LEGGASVAEVARELGISPSTLYRWVRQYregGLGGFPGDGRTTPEQAEIRRLRKELRRL 79
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 2-39 2.76e-04

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: 34.61  E-value: 2.76e-04
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 518397994  2 RKSRFTESQIVQTLKQVEGGRKVKDVCREIGVSEATYY 39
Cdd:cd00569   2 RPPKLTPEQIAEARRLLAAGESVAEIARELGVSRSTLY 39
transpos_IS481 NF033577
IS481 family transposase; null
 17-50 1.27e-03

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 34.87  E-value: 1.27e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 518397994  17 QVEGGRKVKDVCREIGVSEATYYQWKSKY--GGMEA 50
Cdd:NF033577   9 VLEDGWSVREAARRFGISRKTVYKWLKRYraGGEEG 44
transpos_IS3 NF033516
IS3 family transposase;
12-73 3.31e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 34.08  E-value: 3.31e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 518397994  12 VQTLKQVEGGRKVKDVCREIGVSEATYYQWK----SKYGGMEAADVRRLKELEDENNRL---KRMYAEL 73
Cdd:NF033516  91 YALIDALRGEYSVRRACRVLGVSRSTYYYWRkrppSRRAPDDAELRARIREIFEESRGRygyRRITALL 159
 
Name Accession Description Interval E-value
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-71 6.56e-18

Transposase; Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.


Pssm-ID: 426308 [Multi-domain]  Cd Length: 75  Bit Score: 70.08  E-value: 6.56e-18
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 518397994   2 RKSRFTESQIVQTLKQV-EGGRKVKDVCREIGVSEATYYQWKSKY-GGMEAADVR-RLKELEDENNRLKRMYA 71
Cdd:pfam01527  3 KRRRFSEEFKLRAVKEVlEPGRTVKEVARRHGVSPNTLYQWRRQYeGGMGASPARpRLTALEEENRRLKRELA 75
transpos_IS3 NF033516
IS3 family transposase;
10-73 1.43e-16

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 71.44  E-value: 1.43e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 518397994  10 QIVQTLKQV-EGGRKVKDVCREIGVSEATYYQWKSKY-GGMEAADVRRLKEL----EDENNRLKRMYAEL 73
Cdd:NF033516   2 FKLEAVREVlEGGKSVAEVARELGISPSTLYRWRKKYrGGGEAADAGRLKELltpeEEENRRLKRELAEL 71
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
18-73 4.72e-05

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 37.60  E-value: 4.72e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 518397994 18 VEGGRKVKDVCREIGVSEATYYQWKSKY---GGMEAADVRRLKELEDENNRLKRMYAEL 73
Cdd:COG2963  21 LEGGASVAEVARELGISPSTLYRWVRQYregGLGGFPGDGRTTPEQAEIRRLRKELRRL 79
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 2-39 2.76e-04

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: 34.61  E-value: 2.76e-04
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 518397994  2 RKSRFTESQIVQTLKQVEGGRKVKDVCREIGVSEATYY 39
Cdd:cd00569   2 RPPKLTPEQIAEARRLLAAGESVAEIARELGVSRSTLY 39
GlpR COG1349
DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, ...
 10-70 4.36e-04

DNA-binding transcriptional regulator of sugar metabolism, DeoR/GlpR family [Transcription, Carbohydrate transport and metabolism];


Pssm-ID: 440960 [Multi-domain]  Cd Length: 254  Bit Score: 36.27  E-value: 4.36e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 518397994  10 QIVQTLKQvEGGRKVKDVCREIGVSEATyyqwkskyggmeaadVRR-LKELEDEnNRLKRMY 70
Cdd:COG1349    9 KILELLRE-RGRVSVEELAERLGVSEET---------------IRRdLAELEEQ-GLLRRVH 53
transpos_IS481 NF033577
IS481 family transposase; null
 17-50 1.27e-03

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 34.87  E-value: 1.27e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 518397994  17 QVEGGRKVKDVCREIGVSEATYYQWKSKY--GGMEA 50
Cdd:NF033577   9 VLEDGWSVREAARRFGISRKTVYKWLKRYraGGEEG 44
transpos_IS3 NF033516
IS3 family transposase;
12-73 3.31e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 34.08  E-value: 3.31e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 518397994  12 VQTLKQVEGGRKVKDVCREIGVSEATYYQWK----SKYGGMEAADVRRLKELEDENNRL---KRMYAEL 73
Cdd:NF033516  91 YALIDALRGEYSVRRACRVLGVSRSTYYYWRkrppSRRAPDDAELRARIREIFEESRGRygyRRITALL 159
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 15-45 9.09e-03

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


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 31.02  E-value: 9.09e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 518397994  15 LKQVEGGRKVKDVCREIGVSEATYYQWKSKY 45
Cdd:pfam13518  6 VLLALEGESIKEAARLFGISRSTVYRWIRRY 36
 
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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