MAG: hypothetical protein B6I32_00735 [Desulfobacterium sp. 4572_20]
Protein Classification
GIY-YIG nuclease family protein( domain architecture ID 61901)
GIY-YIG nuclease family protein similar to Escherichia virus T4 endonuclease segA that may be involved in the movement of the endonuclease-encoding DNA
List of domain hits
| Name | Accession | Description | Interval | E-value | ||
| GIY-YIG_SF super family | cl15257 | GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large ... |
3-37 | 2.73e-06 | ||
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large and diverse group of proteins involved in many cellular processes, such as class I homing GIY-YIG family endonucleases, prokaryotic nucleotide excision repair proteins UvrC and Cho, type II restriction enzymes, the endonuclease/reverse transcriptase of eukaryotic retrotransposable elements, and a family of eukaryotic enzymes that repair stalled replication forks. All of these members contain a conserved GIY-YIG nuclease domain that may serve as a scaffold for the coordination of a divalent metal ion required for catalysis of the phosphodiester bond cleavage. By combining with different specificity, targeting, or other domains, the GIY-YIG nucleases may perform different functions. The actual alignment was detected with superfamily member cd10449: Pssm-ID: 472790 Cd Length: 67 Bit Score: 39.88 E-value: 2.73e-06
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| Name | Accession | Description | Interval | E-value | ||
| GIY-YIG_SLX1_like | cd10449 | Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its ... |
3-37 | 2.73e-06 | ||
Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Structure-specific endonuclease subunit SLX1 is a highly conserved protein from yeast to human, with an N-terminal GIY-YIG endonuclease domain and a C-terminal PHD-type zinc finger postulated to mediate protein-protein or protein-DNA interaction. SLX1 forms active heterodimeric complexes with its SLX4 partner, which has additional roles in the DNA damage response that are distinct from the function of the heterodimeric SLX1-SLX4 nuclease. In yeast, the SLX1-SLX4 complex functions as a 5' flap endonuclease that maintains ribosomal DNA copy number, where SLX1 and SLX4 are shown to be catalytic and regulatory subunits, respectively. This endonuclease introduces single-strand cuts in duplex DNA on the 3' side of junctions with single-strand DNA. In addition to 5' flap endonuclease activity, human SLX1-SLX4 complex has been identified as a Holliday junction resolvase that promotes symmetrical cleavage of static and migrating Holliday junctions. SLX1 also associates with MUS81, EME1, C20orf94, PLK1, and ERCC1. Some eukaryotic SLX1 homologs lack the zinc finger domain, but possess intrinsically unstructured extensions of unknown function. These unstructured segments might be involved in interactions with other proteins. Pssm-ID: 198396 Cd Length: 67 Bit Score: 39.88 E-value: 2.73e-06
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| YhbQ | COG2827 | Predicted endonuclease, GIY-YIG superfamily [Replication, recombination and repair]; |
4-36 | 3.24e-06 | ||
Predicted endonuclease, GIY-YIG superfamily [Replication, recombination and repair]; Pssm-ID: 442075 [Multi-domain] Cd Length: 82 Bit Score: 40.11 E-value: 3.24e-06
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| PRK00329 | PRK00329 | GIY-YIG nuclease superfamily protein; Validated |
4-31 | 2.14e-04 | ||
GIY-YIG nuclease superfamily protein; Validated Pssm-ID: 178979 Cd Length: 86 Bit Score: 35.28 E-value: 2.14e-04
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| Name | Accession | Description | Interval | E-value | ||
| GIY-YIG_SLX1_like | cd10449 | Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its ... |
3-37 | 2.73e-06 | ||
Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Structure-specific endonuclease subunit SLX1 is a highly conserved protein from yeast to human, with an N-terminal GIY-YIG endonuclease domain and a C-terminal PHD-type zinc finger postulated to mediate protein-protein or protein-DNA interaction. SLX1 forms active heterodimeric complexes with its SLX4 partner, which has additional roles in the DNA damage response that are distinct from the function of the heterodimeric SLX1-SLX4 nuclease. In yeast, the SLX1-SLX4 complex functions as a 5' flap endonuclease that maintains ribosomal DNA copy number, where SLX1 and SLX4 are shown to be catalytic and regulatory subunits, respectively. This endonuclease introduces single-strand cuts in duplex DNA on the 3' side of junctions with single-strand DNA. In addition to 5' flap endonuclease activity, human SLX1-SLX4 complex has been identified as a Holliday junction resolvase that promotes symmetrical cleavage of static and migrating Holliday junctions. SLX1 also associates with MUS81, EME1, C20orf94, PLK1, and ERCC1. Some eukaryotic SLX1 homologs lack the zinc finger domain, but possess intrinsically unstructured extensions of unknown function. These unstructured segments might be involved in interactions with other proteins. Pssm-ID: 198396 Cd Length: 67 Bit Score: 39.88 E-value: 2.73e-06
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| YhbQ | COG2827 | Predicted endonuclease, GIY-YIG superfamily [Replication, recombination and repair]; |
4-36 | 3.24e-06 | ||
Predicted endonuclease, GIY-YIG superfamily [Replication, recombination and repair]; Pssm-ID: 442075 [Multi-domain] Cd Length: 82 Bit Score: 40.11 E-value: 3.24e-06
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| GIY-YIG_MSH | cd10438 | Catalytic GIY-YIG domain of eukaryotic DNA mismatch repair protein MutS homologs; This family ... |
5-32 | 1.24e-05 | ||
Catalytic GIY-YIG domain of eukaryotic DNA mismatch repair protein MutS homologs; This family represents a putative GIY-YIG nuclease domain C-terminally fused to the DNA-repair ATPase on a small group of eukaryotic DNA mismatch repair protein mutS homologs (MSH). The MSH proteins in this family do not have the zinc finger domain, but have a predicted mitochondrial localization. They might play roles in the recognition and repair of errors made during the replication of DNA. The prototype of this family is the protein encoded by the chloroplast mutator (CHM) locus from Arabidopsis thaliana. It is suggested that this protein could be involved in the maintenance of mitochondrial genome stability. Pssm-ID: 198385 Cd Length: 72 Bit Score: 38.22 E-value: 1.24e-05
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| GIY-YIG_UPF0213 | cd10456 | The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific ... |
4-31 | 1.33e-05 | ||
The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; This family contains a group of uncharacterized proteins found mainly in bacteria and several in dsDNA viruses. Although their function roles have not been recognized, these proteins show significant sequence similarities with the N-terminal GIY-YIG endonuclease domain of structure-specific endonuclease subunit SLX1, which binds another structure-specific endonuclease subunit SLX4 to form an active heterodimeric SLX1-SLX4 complex. This complex functions as a 5' flap endonuclease in yeast, and has also been identified as a Holliday junction resolvase in human. Pssm-ID: 198403 Cd Length: 68 Bit Score: 38.16 E-value: 1.33e-05
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| PRK00329 | PRK00329 | GIY-YIG nuclease superfamily protein; Validated |
4-31 | 2.14e-04 | ||
GIY-YIG nuclease superfamily protein; Validated Pssm-ID: 178979 Cd Length: 86 Bit Score: 35.28 E-value: 2.14e-04
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| GIY-YIG_unchar_3 | cd10448 | GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; The family includes ... |
12-36 | 3.47e-03 | ||
GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; The family includes a group of uncharacterized bacterial proteins with a GIY-YIG domain that shows statistically significant similarity to the N-terminal catalytic domains of GIY-YIG family of intron-encoded homing endonuclease I-TevI and catalytic GIY-YIG domain of nucleotide excision repair endonuclease UvrC. Pssm-ID: 198395 Cd Length: 87 Bit Score: 32.47 E-value: 3.47e-03
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| GIY-YIG_SF | cd00719 | GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large ... |
4-35 | 4.45e-03 | ||
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large and diverse group of proteins involved in many cellular processes, such as class I homing GIY-YIG family endonucleases, prokaryotic nucleotide excision repair proteins UvrC and Cho, type II restriction enzymes, the endonuclease/reverse transcriptase of eukaryotic retrotransposable elements, and a family of eukaryotic enzymes that repair stalled replication forks. All of these members contain a conserved GIY-YIG nuclease domain that may serve as a scaffold for the coordination of a divalent metal ion required for catalysis of the phosphodiester bond cleavage. By combining with different specificity, targeting, or other domains, the GIY-YIG nucleases may perform different functions. Pssm-ID: 198380 [Multi-domain] Cd Length: 69 Bit Score: 31.57 E-value: 4.45e-03
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