NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|908266152|gb|AKT04110|]
View 

transposase family protein (plasmid) [Yersinia pestis 1045]

Protein Classification

transposase family protein( domain architecture ID 1750059)

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:0003677|GO:0006313
PubMed:  11774877

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
transpos_IS3 super family cl41295
IS3 family transposase;
9-83 1.58e-19

IS3 family transposase;


The actual alignment was detected with superfamily member NF033516:

Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 80.30  E-value: 1.58e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152   9 EQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF-GGMGVTELRRLRQL----EDENQRLKRLVADLSLDKEMLQD 82
Cdd:NF033516   1 EFKLEAVREVlEGGKSVAEVARELGISPSTLYRWRKKYrGGGEAADAGRLKELltpeEEENRRLKRELAELRLENEILKK 80


                 .
gi 908266152  83 V 83
Cdd:NF033516  81 A 81
 
Name Accession Description Interval E-value
transpos_IS3 NF033516
IS3 family transposase;
9-83 1.58e-19

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 80.30  E-value: 1.58e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152   9 EQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF-GGMGVTELRRLRQL----EDENQRLKRLVADLSLDKEMLQD 82
Cdd:NF033516   1 EFKLEAVREVlEGGKSVAEVARELGISPSTLYRWRKKYrGGGEAADAGRLKELltpeEEENRRLKRELAELRLENEILKK 80


                 .
gi 908266152  83 V 83
Cdd:NF033516  81 A 81
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-71 2.62e-19

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: 74.31  E-value: 2.62e-19
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908266152   2 KKTRYTEEQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF-GGMGVTELR-RLRQLEDENQRLKRLVA 71
Cdd:pfam01527  3 KRRRFSEEFKLRAVKEVlEPGRTVKEVARRHGVSPNTLYQWRRQYeGGMGASPARpRLTALEEENRRLKRELA 75
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
1-80 1.04e-07

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 44.92  E-value: 1.04e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152  1 MKKTR--YTEEQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF---GGMGVTELRRLRQLEDENQRLKRLVADLS 74
Cdd:COG2963   1 MSKKRrrYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVRQYregGLGGFPGDGRTTPEQAEIRRLRKELRRLE 80


                ....*.
gi 908266152 75 LDKEML 80
Cdd:COG2963  81 MENDIL 86
transpos_IS481 NF033577
IS481 family transposase; null
 11-45 7.73e-05

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 39.11  E-value: 7.73e-05
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 908266152  11 IAFALKQAETGTRVEEVCRKMGISEATFYNWKKKF 45
Cdd:NF033577   3 LELVRLVLEDGWSVREAARRFGISRKTVYKWLKRY 37
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 7-41 1.95e-03

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: 32.68  E-value: 1.95e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 908266152  7 TEEQIAFALKQAETGTRVEEVCRKMGISEATFYNW 41
Cdd:cd00569   7 TPEQIAEARRLLAAGESVAEIARELGVSRSTLYRY 41
PRK09413 PRK09413
IS2 repressor TnpA; Reviewed
 2-84 4.35e-03

IS2 repressor TnpA; Reviewed


Pssm-ID: 181833  Cd Length: 121  Bit Score: 33.62  E-value: 4.35e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152   2 KKTRYTEEQIAFALKQAETGTRVEEVCRKMGISEATFYNWKKKF---------GGMGVTELRRLRQLEDENQRLKRLVAD 72
Cdd:PRK09413  10 RRRRTTQEKIAIVQQSFEPGMTVSLVARQHGVAASQLFLWRKQYqegsltavaAGEQVVPASELAAAMKQIKELQRLLGK 89

                         90
                 ....*....|..
gi 908266152  73 LSLDKEMLQDVI 84
Cdd:PRK09413  90 KTMENELLKEAV 101
transpos_IS3 NF033516
IS3 family transposase;
2-73 9.59e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 33.31  E-value: 9.59e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908266152   2 KKTRYTEEQIAFALKQAETGT-RVEEVCRKMGISEATFYNWKKkfggmgvtelRRLRQLEDENQRLKRLVADL 73
Cdd:NF033516  80 KARKLLRPAVKYALIDALRGEySVRRACRVLGVSRSTYYYWRK----------RPPSRRAPDDAELRARIREI 142
 
Name Accession Description Interval E-value
transpos_IS3 NF033516
IS3 family transposase;
9-83 1.58e-19

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 80.30  E-value: 1.58e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152   9 EQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF-GGMGVTELRRLRQL----EDENQRLKRLVADLSLDKEMLQD 82
Cdd:NF033516   1 EFKLEAVREVlEGGKSVAEVARELGISPSTLYRWRKKYrGGGEAADAGRLKELltpeEEENRRLKRELAELRLENEILKK 80


                 .
gi 908266152  83 V 83
Cdd:NF033516  81 A 81
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-71 2.62e-19

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: 74.31  E-value: 2.62e-19
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908266152   2 KKTRYTEEQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF-GGMGVTELR-RLRQLEDENQRLKRLVA 71
Cdd:pfam01527  3 KRRRFSEEFKLRAVKEVlEPGRTVKEVARRHGVSPNTLYQWRRQYeGGMGASPARpRLTALEEENRRLKRELA 75
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
1-80 1.04e-07

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 44.92  E-value: 1.04e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152  1 MKKTR--YTEEQIAFALKQA-ETGTRVEEVCRKMGISEATFYNWKKKF---GGMGVTELRRLRQLEDENQRLKRLVADLS 74
Cdd:COG2963   1 MSKKRrrYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVRQYregGLGGFPGDGRTTPEQAEIRRLRKELRRLE 80


                ....*.
gi 908266152 75 LDKEML 80
Cdd:COG2963  81 MENDIL 86
transpos_IS481 NF033577
IS481 family transposase; null
 11-45 7.73e-05

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 39.11  E-value: 7.73e-05
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 908266152  11 IAFALKQAETGTRVEEVCRKMGISEATFYNWKKKF 45
Cdd:NF033577   3 LELVRLVLEDGWSVREAARRFGISRKTVYKWLKRY 37
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 14-57 1.36e-04

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: 36.03  E-value: 1.36e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 908266152  14 ALKQAETGTRVEEVCRKMGISEATFYNWKKKFGGMGVTELRRLR 57
Cdd:pfam13518  5 IVLLALEGESIKEAARLFGISRSTVYRWIRRYREGGLEGLLPRR 48
HTH_23 pfam13384
Homeodomain-like domain;
14-54 1.29e-03

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 33.40  E-value: 1.29e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 908266152  14 ALKQAETGTRVEEVCRKMGISEATFYNWKKKFGGMGVTELR 54
Cdd:pfam13384 10 ALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEEGLEGLL 50
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 7-41 1.95e-03

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: 32.68  E-value: 1.95e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 908266152  7 TEEQIAFALKQAETGTRVEEVCRKMGISEATFYNW 41
Cdd:cd00569   7 TPEQIAEARRLLAAGESVAEIARELGVSRSTLYRY 41
PRK09413 PRK09413
IS2 repressor TnpA; Reviewed
 2-84 4.35e-03

IS2 repressor TnpA; Reviewed


Pssm-ID: 181833  Cd Length: 121  Bit Score: 33.62  E-value: 4.35e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 908266152   2 KKTRYTEEQIAFALKQAETGTRVEEVCRKMGISEATFYNWKKKF---------GGMGVTELRRLRQLEDENQRLKRLVAD 72
Cdd:PRK09413  10 RRRRTTQEKIAIVQQSFEPGMTVSLVARQHGVAASQLFLWRKQYqegsltavaAGEQVVPASELAAAMKQIKELQRLLGK 89

                         90
                 ....*....|..
gi 908266152  73 LSLDKEMLQDVI 84
Cdd:PRK09413  90 KTMENELLKEAV 101
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 9-46 5.77e-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: 33.98  E-value: 5.77e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 908266152   9 EQIAFALKqaETGTRVEEVCRKMGISEATFYNWKKKFG 46
Cdd:COG3829  411 ELIEEALE--KTGGNKSKAAKALGISRSTLYRKLKKYG 446
transpos_IS3 NF033516
IS3 family transposase;
2-73 9.59e-03

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 33.31  E-value: 9.59e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908266152   2 KKTRYTEEQIAFALKQAETGT-RVEEVCRKMGISEATFYNWKKkfggmgvtelRRLRQLEDENQRLKRLVADL 73
Cdd:NF033516  80 KARKLLRPAVKYALIDALRGEySVRRACRVLGVSRSTYYYWRK----------RPPSRRAPDDAELRARIREI 142
 
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