recombinase family protein similar to Staphylococcus aureus site-specific recombinase that catalyzes the chromosomal excision and reintegration of the genomic island designated staphylococcal cassette chromosome mec (SCCmec)
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated ...
399-460
1.23e-04
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated by the FliA sigma factor, a transcription factor specific for class 3 flagellar operons. However FlxA is not required for flagellar function or formation.
:
Pssm-ID: 433836 [Multi-domain] Cd Length: 101 Bit Score: 41.24 E-value: 1.23e-04
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
5-154
8.95e-35
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Pssm-ID: 214861 [Multi-domain] Cd Length: 148 Bit Score: 128.12 E-value: 8.95e-35
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
5-155
2.37e-33
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.
Pssm-ID: 425548 [Multi-domain] Cd Length: 144 Bit Score: 123.92 E-value: 2.37e-33
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
7-143
1.47e-29
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are proteins with N-terminal DNA binding domains similar to IS607- and IS1535-transposases from Helicobacter and Mycobacterium.
Pssm-ID: 238206 [Multi-domain] Cd Length: 137 Bit Score: 113.12 E-value: 1.47e-29
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated ...
399-460
1.23e-04
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated by the FliA sigma factor, a transcription factor specific for class 3 flagellar operons. However FlxA is not required for flagellar function or formation.
Pssm-ID: 433836 [Multi-domain] Cd Length: 101 Bit Score: 41.24 E-value: 1.23e-04
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
5-154
8.95e-35
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Pssm-ID: 214861 [Multi-domain] Cd Length: 148 Bit Score: 128.12 E-value: 8.95e-35
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
5-155
2.37e-33
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.
Pssm-ID: 425548 [Multi-domain] Cd Length: 144 Bit Score: 123.92 E-value: 2.37e-33
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
7-143
1.47e-29
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are proteins with N-terminal DNA binding domains similar to IS607- and IS1535-transposases from Helicobacter and Mycobacterium.
Pssm-ID: 238206 [Multi-domain] Cd Length: 137 Bit Score: 113.12 E-value: 1.47e-29
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
5-143
1.05e-28
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some putative integrases including a sequence from bacteriophage phi-FC1.
Pssm-ID: 239737 [Multi-domain] Cd Length: 126 Bit Score: 110.65 E-value: 1.05e-28
Recombinase; This domain is usually found associated with pfam00239 in putative integrases ...
180-286
6.24e-23
Recombinase; This domain is usually found associated with pfam00239 in putative integrases/recombinases of mobile genetic elements of diverse bacteria and phages.
Pssm-ID: 429502 [Multi-domain] Cd Length: 102 Bit Score: 93.23 E-value: 6.24e-23
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Pssm-ID: 239739 [Multi-domain] Cd Length: 140 Bit Score: 66.62 E-value: 4.58e-13
Recombinase zinc beta ribbon domain; This short bacterial protein contains a zinc ribbon ...
300-361
1.97e-10
Recombinase zinc beta ribbon domain; This short bacterial protein contains a zinc ribbon domain that is likely to be DNA-binding. This domain is found in site specific recombinase proteins. This family appears most closely related to pfam04606.
Pssm-ID: 433183 [Multi-domain] Cd Length: 58 Bit Score: 56.48 E-value: 1.97e-10
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated ...
399-460
1.23e-04
FlxA-like protein; This family includes FlxA from E. coli. The expression of FlxA is regulated by the FliA sigma factor, a transcription factor specific for class 3 flagellar operons. However FlxA is not required for flagellar function or formation.
Pssm-ID: 433836 [Multi-domain] Cd Length: 101 Bit Score: 41.24 E-value: 1.23e-04
Ogr/Delta-like zinc finger; This is a viral family of phage zinc-binding transcriptional ...
305-337
6.77e-04
Ogr/Delta-like zinc finger; This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F. This family also includes zinc fingers in recombinase proteins.
Pssm-ID: 428030 Cd Length: 47 Bit Score: 37.69 E-value: 6.77e-04
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Pssm-ID: 239738 Cd Length: 134 Bit Score: 39.17 E-value: 1.12e-03
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
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Functional characterization of the conserved domain architecture found on the query.
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This image shows a graphical summary of conserved domains identified on the query sequence.
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if a domain or superfamily has been annotated with functional sites (conserved features),
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click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.
The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
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Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence.
(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
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