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Conserved domains on  [gi|908670712|ref|WP_049802510|]
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Uma2 family endonuclease [Gloeothece verrucosa]

Protein Classification

Uma2 family endonuclease( domain architecture ID 10008647)

Uma2 family endonuclease belongs to the PDDEXK nuclease superfamily and may act as a restriction endonuclease

Gene Ontology:  GO:0003676|GO:0004519
PubMed:  17584917|16011798
SCOP:  3000104

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Uma2 COG4636
Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];
2-77 4.55e-16

Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];


:

Pssm-ID: 443674  Cd Length: 187  Bit Score: 68.47  E-value: 4.55e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 908670712   2 VEVAD-TTVRVDR-KKALTYAGANIPEYWILDINQQQVYQFcQPQDNKYQQERILSGDIVVSLVSFPEIEVPISRLFP 77
Cdd:COG4636  109 VEVLSpSTARYDRgEKLALYARAGVPEYWLVDPEQRTVEVY-RLPEGEYELLTYEGGDTLSSLPVLPGLELDLEELFE 185
 
Name Accession Description Interval E-value
Uma2 COG4636
Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];
2-77 4.55e-16

Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];


Pssm-ID: 443674  Cd Length: 187  Bit Score: 68.47  E-value: 4.55e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 908670712   2 VEVAD-TTVRVDR-KKALTYAGANIPEYWILDINQQQVYQFcQPQDNKYQQERILSGDIVVSLVSFPEIEVPISRLFP 77
Cdd:COG4636  109 VEVLSpSTARYDRgEKLALYARAGVPEYWLVDPEQRTVEVY-RLPEGEYELLTYEGGDTLSSLPVLPGLELDLEELFE 185
DUF820-like cd06260
Uncharacterized PDDEXK family nuclease; The Domain of unknown function 820 (DUF820) family is ...
 2-71 1.63e-08

Uncharacterized PDDEXK family nuclease; The Domain of unknown function 820 (DUF820) family is composed of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of nucleases, which includes very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411709  Cd Length: 155  Bit Score: 48.20  E-value: 1.63e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 908670712   2 VEVADT-TVRVDR-KKALTYAGANIPEYWILDINQQQVYQFCQPQDNKYQQERilsGDIVVSLVSFPEIEVP 71
Cdd:cd06260   87 VEVLSPsTRYRDLgDKLELYARAGVPEYWLVDPEERTVEVYRLEDGEAYVLVG---GETLSGESVLPGLELR 155
Uma2 pfam05685
Putative restriction endonuclease; This entry includes a group of putative nuclease, including ...
 1-71 3.80e-08

Putative restriction endonuclease; This entry includes a group of putative nuclease, including hypothetical protein TT1808 (also known as Uma2 or TTHA1514), an AT-rich DNA-binding protein from Thermus thermophilus. This domain has a 3-layer alpha/beta/alpha topology similar to that found in restriction endonucleases. The nuclease domain is ubiquitously found in enzymes involved in metabolism of nucleic acids, mostly in nucleases with diverse biological functions.


Pssm-ID: 428585  Cd Length: 169  Bit Score: 47.40  E-value: 3.80e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908670712    1 MVEVADTTVRVDR-KKALTYAGANIPEYWILDINQQQVYQFCQPQDNkYQQERILSGDIVVSLV-SFPEIEVP 71
Cdd:pfam05685  98 VVEVLSPSTSYDLgDKRRLYAAAGVPEYWLVDPKERRVEVFRLEDGE-YQLVEVLEGGETLSLEeALPGLELA 169
 
Name Accession Description Interval E-value
Uma2 COG4636
Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];
2-77 4.55e-16

Endonuclease, Uma2 family (restriction endonuclease fold) [General function prediction only];


Pssm-ID: 443674  Cd Length: 187  Bit Score: 68.47  E-value: 4.55e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 908670712   2 VEVAD-TTVRVDR-KKALTYAGANIPEYWILDINQQQVYQFcQPQDNKYQQERILSGDIVVSLVSFPEIEVPISRLFP 77
Cdd:COG4636  109 VEVLSpSTARYDRgEKLALYARAGVPEYWLVDPEQRTVEVY-RLPEGEYELLTYEGGDTLSSLPVLPGLELDLEELFE 185
DUF820-like cd06260
Uncharacterized PDDEXK family nuclease; The Domain of unknown function 820 (DUF820) family is ...
 2-71 1.63e-08

Uncharacterized PDDEXK family nuclease; The Domain of unknown function 820 (DUF820) family is composed of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of nucleases, which includes very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.


Pssm-ID: 411709  Cd Length: 155  Bit Score: 48.20  E-value: 1.63e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 908670712   2 VEVADT-TVRVDR-KKALTYAGANIPEYWILDINQQQVYQFCQPQDNKYQQERilsGDIVVSLVSFPEIEVP 71
Cdd:cd06260   87 VEVLSPsTRYRDLgDKLELYARAGVPEYWLVDPEERTVEVYRLEDGEAYVLVG---GETLSGESVLPGLELR 155
Uma2 pfam05685
Putative restriction endonuclease; This entry includes a group of putative nuclease, including ...
 1-71 3.80e-08

Putative restriction endonuclease; This entry includes a group of putative nuclease, including hypothetical protein TT1808 (also known as Uma2 or TTHA1514), an AT-rich DNA-binding protein from Thermus thermophilus. This domain has a 3-layer alpha/beta/alpha topology similar to that found in restriction endonucleases. The nuclease domain is ubiquitously found in enzymes involved in metabolism of nucleic acids, mostly in nucleases with diverse biological functions.


Pssm-ID: 428585  Cd Length: 169  Bit Score: 47.40  E-value: 3.80e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 908670712    1 MVEVADTTVRVDR-KKALTYAGANIPEYWILDINQQQVYQFCQPQDNkYQQERILSGDIVVSLV-SFPEIEVP 71
Cdd:pfam05685  98 VVEVLSPSTSYDLgDKRRLYAAAGVPEYWLVDPKERRVEVFRLEDGE-YQLVEVLEGGETLSLEeALPGLELA 169
 
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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