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Conserved domains on  [gi|488905210|ref|WP_002816285|]
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MULTISPECIES: IS3 family transposase [Bacteria]

Protein Classification

transposase( domain architecture ID 11459289)

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; similar to Escherichia coli IS150 protein InsAB

CATH:  1.10.10.10
Gene Ontology:  GO:0006313|GO:0003677|GO:0004803
PubMed:  20885819

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
4-80 3.63e-17

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


:

Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 69.18  E-value: 3.63e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488905210  4 RYDKEFKQNIINLY-KQGESAAQLAREYGIGYSTVHKWIQgQAKTQSGKSP----------DEIKAMEKRLASLSEENEI 72
Cdd:COG2963   7 RYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVR-QYREGGLGGFpgdgrttpeqAEIRRLRKELRRLEMENDI 85


                ....*...
gi 488905210 73 LKKALGFL 80
Cdd:COG2963  86 LKKAAALL 93
 
Name Accession Description Interval E-value
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
4-80 3.63e-17

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 69.18  E-value: 3.63e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488905210  4 RYDKEFKQNIINLY-KQGESAAQLAREYGIGYSTVHKWIQgQAKTQSGKSP----------DEIKAMEKRLASLSEENEI 72
Cdd:COG2963   7 RYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVR-QYREGGLGGFpgdgrttpeqAEIRRLRKELRRLEMENDI 85


                ....*...
gi 488905210 73 LKKALGFL 80
Cdd:COG2963  86 LKKAAALL 93
transpos_IS3 NF033516
IS3 family transposase;
8-80 4.54e-15

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 67.98  E-value: 4.54e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488905210   8 EFKQNIINL-YKQGESAAQLAREYGIGYSTVHKWIQ------GQAKTQSGKSP-----DEIKAMEKRLASLSEENEILKK 75
Cdd:NF033516   1 EFKLEAVREvLEGGKSVAEVARELGISPSTLYRWRKkyrgggEAADAGRLKELltpeeEENRRLKRELAELRLENEILKK 80


                 ....*
gi 488905210  76 ALGFL 80
Cdd:NF033516  81 ARKLL 85
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 9-42 1.51e-06

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: 41.04  E-value: 1.51e-06
                         10        20        30
                 ....*....|....*....|....*....|....
gi 488905210   9 FKQNIINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:pfam13518  1 ERLKIVLLALEGESIKEAARLFGISRSTVYRWIR 34
transpos_IS630 NF033545
IS630 family transposase;
13-42 1.07e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 38.39  E-value: 1.07e-04
                         10        20        30
                 ....*....|....*....|....*....|
gi 488905210  13 IINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:NF033545   5 ILLLAAEGLSITEIAERLGVSRSTVYRWLK 34
transpos_IS21 NF033546
IS21 family transposase;
13-45 7.93e-04

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 36.03  E-value: 7.93e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488905210  13 IINLYKQGESAAQLAREYGIGYSTVHKWIQGQA 45
Cdd:NF033546   1 IRLLFRQGLSIREIARELGISRNTVRKYLRRAG 33
transpos_IS481 NF033577
IS481 family transposase; null
 13-42 1.66e-03

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 35.26  E-value: 1.66e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488905210  13 IINLYKQ-GESAAQLAREYGIGYSTVHKWIQ 42
Cdd:NF033577   5 LVRLVLEdGWSVREAARRFGISRKTVYKWLK 35
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 16-41 4.11e-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: 31.91  E-value: 4.11e-03
                        10        20
                ....*....|....*....|....*.
gi 488905210 16 LYKQGESAAQLAREYGIGYSTVHKWI 41
Cdd:cd00569  17 LLAAGESVAEIARELGVSRSTLYRYL 42
BcepMu_gp16 TIGR04111
phage-associated protein, BcepMu gp16 family; Members of this protein family occur in ...
 7-52 7.32e-03

phage-associated protein, BcepMu gp16 family; Members of this protein family occur in Burkholderia phage BcepMu, Pseudomonas phage B3, and Burkholderia phage KS10, and many bacterial putative prophage regions. The member from Burkholderia phage BcepMu is named gp16. Homology suggests DNA-binding activity. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 274987  Cd Length: 55  Bit Score: 31.74  E-value: 7.32e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 488905210   7 KEFKQNiinLYKQGESAAQLAREYGIGYSTVHKWIQGQAKTQSGKS 52
Cdd:TIGR04111  3 EQAKAE---FRRQGISIAQWARENGFSPRLVYDVLNGRRKGRRGKS 45
 
Name Accession Description Interval E-value
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
4-80 3.63e-17

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 69.18  E-value: 3.63e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488905210  4 RYDKEFKQNIINLY-KQGESAAQLAREYGIGYSTVHKWIQgQAKTQSGKSP----------DEIKAMEKRLASLSEENEI 72
Cdd:COG2963   7 RYSPEFKAEAVRLVlEGGASVAEVARELGISPSTLYRWVR-QYREGGLGGFpgdgrttpeqAEIRRLRKELRRLEMENDI 85


                ....*...
gi 488905210 73 LKKALGFL 80
Cdd:COG2963  86 LKKAAALL 93
transpos_IS3 NF033516
IS3 family transposase;
8-80 4.54e-15

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 67.98  E-value: 4.54e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488905210   8 EFKQNIINL-YKQGESAAQLAREYGIGYSTVHKWIQ------GQAKTQSGKSP-----DEIKAMEKRLASLSEENEILKK 75
Cdd:NF033516   1 EFKLEAVREvLEGGKSVAEVARELGISPSTLYRWRKkyrgggEAADAGRLKELltpeeEENRRLKRELAELRLENEILKK 80


                 ....*
gi 488905210  76 ALGFL 80
Cdd:NF033516  81 ARKLL 85
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 9-42 1.51e-06

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: 41.04  E-value: 1.51e-06
                         10        20        30
                 ....*....|....*....|....*....|....
gi 488905210   9 FKQNIINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:pfam13518  1 ERLKIVLLALEGESIKEAARLFGISRSTVYRWIR 34
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 2-77 4.83e-06

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: 40.41  E-value: 4.83e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488905210   2 PTRYDKEFKQNIINL-YKQGESAAQLAREYGIGYSTVHKWIQgQAKTQSGKSPDeikamEKRLASLSEENEILKKAL 77
Cdd:pfam01527  4 RRRFSEEFKLRAVKEvLEPGRTVKEVARRHGVSPNTLYQWRR-QYEGGMGASPA-----RPRLTALEEENRRLKREL 74
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 13-42 5.70e-06

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 42.15  E-value: 5.70e-06
                         10        20        30
                 ....*....|....*....|....*....|
gi 488905210  13 IINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:COG3415   31 AVLLLAEGLSVREIAERLGVSRSTVYRWLK 60
HTH_23 pfam13384
Homeodomain-like domain;
10-42 5.33e-05

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 36.86  E-value: 5.33e-05
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488905210  10 KQNIINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:pfam13384  7 RARALLLLAEGLSVKEIAELLGVSRRTVYRWLK 39
transpos_IS630 NF033545
IS630 family transposase;
13-42 1.07e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 38.39  E-value: 1.07e-04
                         10        20        30
                 ....*....|....*....|....*....|
gi 488905210  13 IINLYKQGESAAQLAREYGIGYSTVHKWIQ 42
Cdd:NF033545   5 ILLLAAEGLSITEIAERLGVSRSTVYRWLK 34
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
2-39 2.87e-04

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 35.02  E-value: 2.87e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 488905210   2 PTRYDKEFKQNIINLYKQGESAAQLAREYGIGYSTVHK 39
Cdd:pfam02796  3 PPKLNEEDINEVITLLEEGISIKQIAKIFGISRSTVYR 40
transpos_IS21 NF033546
IS21 family transposase;
13-45 7.93e-04

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 36.03  E-value: 7.93e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 488905210  13 IINLYKQGESAAQLAREYGIGYSTVHKWIQGQA 45
Cdd:NF033546   1 IRLLFRQGLSIREIARELGISRNTVRKYLRRAG 33
transpos_IS481 NF033577
IS481 family transposase; null
 13-42 1.66e-03

IS481 family transposase; null


Pssm-ID: 468094 [Multi-domain]  Cd Length: 283  Bit Score: 35.26  E-value: 1.66e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 488905210  13 IINLYKQ-GESAAQLAREYGIGYSTVHKWIQ 42
Cdd:NF033577   5 LVRLVLEdGWSVREAARRFGISRKTVYKWLK 35
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 16-41 4.11e-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: 31.91  E-value: 4.11e-03
                        10        20
                ....*....|....*....|....*.
gi 488905210 16 LYKQGESAAQLAREYGIGYSTVHKWI 41
Cdd:cd00569  17 LLAAGESVAEIARELGVSRSTLYRYL 42
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 10-46 4.70e-03

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 32.00  E-value: 4.70e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 488905210  10 KQNIINLYKQGESAAQLAREYGIGYSTVHKWIQGQAK 46
Cdd:pfam04218 12 KIAIIQRYEEGESKASLARRFGVPASTLRRILKNKKK 48
BcepMu_gp16 TIGR04111
phage-associated protein, BcepMu gp16 family; Members of this protein family occur in ...
 7-52 7.32e-03

phage-associated protein, BcepMu gp16 family; Members of this protein family occur in Burkholderia phage BcepMu, Pseudomonas phage B3, and Burkholderia phage KS10, and many bacterial putative prophage regions. The member from Burkholderia phage BcepMu is named gp16. Homology suggests DNA-binding activity. [Mobile and extrachromosomal element functions, Prophage functions]


Pssm-ID: 274987  Cd Length: 55  Bit Score: 31.74  E-value: 7.32e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 488905210   7 KEFKQNiinLYKQGESAAQLAREYGIGYSTVHKWIQGQAKTQSGKS 52
Cdd:TIGR04111  3 EQAKAE---FRRQGISIAQWARENGFSPRLVYDVLNGRRKGRRGKS 45
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
22-46 8.59e-03

DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 31.44  E-value: 8.59e-03
                        10        20
                ....*....|....*....|....*
gi 488905210 22 SAAQLAREYGIGYSTVHKWIQGQAK 46
Cdd:COG2944  21 SQAEFAALLGVSVSTVRRWEQGRRK 45
 
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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