phage integrase SAM-like domain-containing protein [Bacteroides sp.]
Protein Classification
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||
| DNA_BRE_C super family | cl00213 | DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ... |
127-298 | 7.45e-29 | ||||
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity. The actual alignment was detected with superfamily member cd01185: Pssm-ID: 469662 [Multi-domain] Cd Length: 161 Bit Score: 108.51 E-value: 7.45e-29
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| Phage_int_SAM_5 super family | cl44621 | Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering ... |
15-97 | 6.53e-09 | ||||
Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering human gut metagenomic sequences. This family appears related to the N-terminal domain of phage integrases. The actual alignment was detected with superfamily member pfam13102: Pssm-ID: 463787 [Multi-domain] Cd Length: 99 Bit Score: 52.61 E-value: 6.53e-09
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| Name | Accession | Description | Interval | E-value | |||||
| INTN1_C_like | cd01185 | Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ... |
127-298 | 7.45e-29 | |||||
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Pssm-ID: 271185 [Multi-domain] Cd Length: 161 Bit Score: 108.51 E-value: 7.45e-29
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| XerD | COG4974 | Site-specific recombinase XerD [Replication, recombination and repair]; |
14-301 | 3.38e-21 | |||||
Site-specific recombinase XerD [Replication, recombination and repair]; Pssm-ID: 443999 [Multi-domain] Cd Length: 291 Bit Score: 91.21 E-value: 3.38e-21
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| Phage_int_SAM_5 | pfam13102 | Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering ... |
15-97 | 6.53e-09 | |||||
Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering human gut metagenomic sequences. This family appears related to the N-terminal domain of phage integrases. Pssm-ID: 463787 [Multi-domain] Cd Length: 99 Bit Score: 52.61 E-value: 6.53e-09
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| Name | Accession | Description | Interval | E-value | |||||
| INTN1_C_like | cd01185 | Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ... |
127-298 | 7.45e-29 | |||||
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Pssm-ID: 271185 [Multi-domain] Cd Length: 161 Bit Score: 108.51 E-value: 7.45e-29
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| XerD | COG4974 | Site-specific recombinase XerD [Replication, recombination and repair]; |
14-301 | 3.38e-21 | |||||
Site-specific recombinase XerD [Replication, recombination and repair]; Pssm-ID: 443999 [Multi-domain] Cd Length: 291 Bit Score: 91.21 E-value: 3.38e-21
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| INT_Rci_Hp1_C | cd00796 | Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ... |
122-296 | 4.19e-09 | |||||
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal catalytic domain; Rci protein is a tyrosine recombinase specifically involved in Shufflon type of DNA rearrangement in bacteria. The shufflon of plasmid R64 consists of four invertible DNA segments which are separated and flanked by seven 19-bp repeat sequences. RCI recombinase facilitates the site-specific recombination between any inverted repeats results in an inversion of the DNA segment(s) either independently or in groups. HP1 integrase promotes site-specific recombination of the HP1 genome into that of Haemophilus influenza. Bacteriophage Hp1_like integrases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Pssm-ID: 271177 [Multi-domain] Cd Length: 162 Bit Score: 54.64 E-value: 4.19e-09
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| Phage_int_SAM_5 | pfam13102 | Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering ... |
15-97 | 6.53e-09 | |||||
Phage integrase SAM-like domain; A family of uncharacterized proteins found by clustering human gut metagenomic sequences. This family appears related to the N-terminal domain of phage integrases. Pssm-ID: 463787 [Multi-domain] Cd Length: 99 Bit Score: 52.61 E-value: 6.53e-09
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| INT_C_like_3 | cd01192 | Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ... |
124-302 | 5.02e-06 | |||||
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity. Pssm-ID: 271192 [Multi-domain] Cd Length: 178 Bit Score: 46.13 E-value: 5.02e-06
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| INT_Cre_C | cd00799 | C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ... |
253-296 | 2.43e-04 | |||||
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region. Pssm-ID: 271180 Cd Length: 188 Bit Score: 41.13 E-value: 2.43e-04
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| DNA_BRE_C | cd00397 | DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ... |
127-295 | 2.59e-04 | |||||
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity. Pssm-ID: 271175 [Multi-domain] Cd Length: 167 Bit Score: 40.93 E-value: 2.59e-04
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| Blast search parameters | ||||
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