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Conserved domains on  [gi|1952231533|ref|WP_199558789|]
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transposase, partial [Paenibacillus curdlanolyticus]

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

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List of domain hits

 Name Accession Description Interval E-value
transpos_IS3 super family cl41295
IS3 family transposase;
12-100 2.02e-12

IS3 family transposase;


The actual alignment was detected with superfamily member NF033516:

Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 61.43  E-value: 2.02e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952231533  12 KRELVAEVL-AGYRVEAVARQHGMSPSTLSTWVRQYQDEvgdivvRKQDEAKQMKldaASLHELQNKYKEAMKLLGEKEL 90
Cdd:NF033516    3 KLEAVREVLeGGKSVAEVARELGISPSTLYRWRKKYRGG------GEAADAGRLK---ELLTPEEEENRRLKRELAELRL 73

                          90
                  ....*....|
gi 1952231533  91 ENNILKDLLK 100
Cdd:NF033516   74 ENEILKKARK 83
 
Name Accession Description Interval E-value
transpos_IS3 NF033516
IS3 family transposase;
12-100 2.02e-12

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 61.43  E-value: 2.02e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952231533  12 KRELVAEVL-AGYRVEAVARQHGMSPSTLSTWVRQYQDEvgdivvRKQDEAKQMKldaASLHELQNKYKEAMKLLGEKEL 90
Cdd:NF033516    3 KLEAVREVLeGGKSVAEVARELGISPSTLYRWRKKYRGG------GEAADAGRLK---ELLTPEEEENRRLKRELAELRL 73

                          90
                  ....*....|
gi 1952231533  91 ENNILKDLLK 100
Cdd:NF033516   74 ENEILKKARK 83
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
2-96 2.28e-10

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 52.62  E-value: 2.28e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952231533   2 KRRFRCPVTVKRELVAEVLA-GYRVEAVARQHGMSPSTLSTWVRQYQDEVGDIVVrkqdeakqmklDAASLHELQNKYKE 80
Cdd:COG2963     3 KKRRRYSPEFKAEAVRLVLEgGASVAEVARELGISPSTLYRWVRQYREGGLGGFP-----------GDGRTTPEQAEIRR 71

                          90
                  ....*....|....*.
gi 1952231533  81 AMKLLGEKELENNILK 96
Cdd:COG2963    72 LRKELRRLEMENDILK 87
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 1-65 2.47e-08

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: 46.96  E-value: 2.47e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1952231533   1 MKRRFRCPVTVKRELVAEVL-AGYRVEAVARQHGMSPSTLSTWVRQYQDEVG-----DIVVRKQDEAKQMK 65
Cdd:pfam01527   1 MKKRRRFSEEFKLRAVKEVLePGRTVKEVARRHGVSPNTLYQWRRQYEGGMGasparPRLTALEEENRRLK 71
PRK09413 PRK09413
IS2 repressor TnpA; Reviewed
 22-100 8.02e-07

IS2 repressor TnpA; Reviewed


Pssm-ID: 181833  Cd Length: 121  Bit Score: 44.41  E-value: 8.02e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1952231533  22 GYRVEAVARQHGMSPSTLSTWVRQYQDEVGDIVVrkqdeAKQMKLDAASLHELQNKYKEAMKLLGEKELENNILKDLLK 100
Cdd:PRK09413   29 GMTVSLVARQHGVAASQLFLWRKQYQEGSLTAVA-----AGEQVVPASELAAAMKQIKELQRLLGKKTMENELLKEAVE 102
HTH_MlrA-CarA cd01104
Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; ...
 23-47 8.07e-03

Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA- and CarA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.


Pssm-ID: 133379  Cd Length: 68  Bit Score: 32.60  E-value: 8.07e-03
                          10        20
                  ....*....|....*....|....*
gi 1952231533  23 YRVEAVARQHGMSPSTLSTWVRQYQ 47
Cdd:cd01104     1 YTIGAVARLTGVSPDTLRAWERRYG 25
 
Name Accession Description Interval E-value
transpos_IS3 NF033516
IS3 family transposase;
12-100 2.02e-12

IS3 family transposase;


Pssm-ID: 468052 [Multi-domain]  Cd Length: 369  Bit Score: 61.43  E-value: 2.02e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952231533  12 KRELVAEVL-AGYRVEAVARQHGMSPSTLSTWVRQYQDEvgdivvRKQDEAKQMKldaASLHELQNKYKEAMKLLGEKEL 90
Cdd:NF033516    3 KLEAVREVLeGGKSVAEVARELGISPSTLYRWRKKYRGG------GEAADAGRLK---ELLTPEEEENRRLKRELAELRL 73

                          90
                  ....*....|
gi 1952231533  91 ENNILKDLLK 100
Cdd:NF033516   74 ENEILKKARK 83
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
2-96 2.28e-10

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


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 52.62  E-value: 2.28e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1952231533   2 KRRFRCPVTVKRELVAEVLA-GYRVEAVARQHGMSPSTLSTWVRQYQDEVGDIVVrkqdeakqmklDAASLHELQNKYKE 80
Cdd:COG2963     3 KKRRRYSPEFKAEAVRLVLEgGASVAEVARELGISPSTLYRWVRQYREGGLGGFP-----------GDGRTTPEQAEIRR 71

                          90
                  ....*....|....*.
gi 1952231533  81 AMKLLGEKELENNILK 96
Cdd:COG2963    72 LRKELRRLEMENDILK 87
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 1-65 2.47e-08

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: 46.96  E-value: 2.47e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1952231533   1 MKRRFRCPVTVKRELVAEVL-AGYRVEAVARQHGMSPSTLSTWVRQYQDEVG-----DIVVRKQDEAKQMK 65
Cdd:pfam01527   1 MKKRRRFSEEFKLRAVKEVLePGRTVKEVARRHGVSPNTLYQWRRQYEGGMGasparPRLTALEEENRRLK 71
PRK09413 PRK09413
IS2 repressor TnpA; Reviewed
 22-100 8.02e-07

IS2 repressor TnpA; Reviewed


Pssm-ID: 181833  Cd Length: 121  Bit Score: 44.41  E-value: 8.02e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1952231533  22 GYRVEAVARQHGMSPSTLSTWVRQYQDEVGDIVVrkqdeAKQMKLDAASLHELQNKYKEAMKLLGEKELENNILKDLLK 100
Cdd:PRK09413   29 GMTVSLVARQHGVAASQLFLWRKQYQEGSLTAVA-----AGEQVVPASELAAAMKQIKELQRLLGKKTMENELLKEAVE 102
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 11-47 3.12e-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: 3.12e-06
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1952231533  11 VKRELVAEVLAGYRVEAVARQHGMSPSTLSTWVRQYQ 47
Cdd:pfam13518   1 ERLKIVLLALEGESIKEAARLFGISRSTVYRWIRRYR 37
HTH_23 pfam13384
Homeodomain-like domain;
9-49 6.91e-04

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 34.94  E-value: 6.91e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1952231533   9 VTVKRELVAEVLAGYRVEAVARQHGMSPSTLSTWVRQYQDE 49
Cdd:pfam13384   4 ERRRARALLLLAEGLSVKEIAELLGVSRRTVYRWLKRYNEE 44
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 3-49 1.59e-03

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: 36.37  E-value: 1.59e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1952231533   3 RRFRCPVTVKREL-VAEVLAGYRVEAVARQHGMSPSTLSTWVRQYQDE 49
Cdd:COG3415    18 RKTKDAREARRLRaVLLLAEGLSVREIAERLGVSRSTVYRWLKRYREG 65
HTH_MlrA-CarA cd01104
Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; ...
 23-47 8.07e-03

Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA- and CarA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.


Pssm-ID: 133379  Cd Length: 68  Bit Score: 32.60  E-value: 8.07e-03
                          10        20
                  ....*....|....*....|....*
gi 1952231533  23 YRVEAVARQHGMSPSTLSTWVRQYQ 47
Cdd:cd01104     1 YTIGAVARLTGVSPDTLRAWERRYG 25
 
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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