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XRN_family_5-3_exonuclease
Euk-VirPhaeocystis_globosa_virus
XRN_family_5-3_exonuclease__YP_008052345__Phaeocystis_globosa_virus__251749
Identity
- Accession:
- YP_008052345 ↗
- Protein ID:
- XRN_family_5-3_exonuclease
- Kingdom:
- euk
Quality
75.1
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Algavirales›
Phycodnaviridae›
Prymnesiovirus›
Phaeocystis_globosa_virus
TaxID: 251749
Cluster
View cluster (15 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 456-525
D2
medium
residues 6-231
Domain cluster:
rep: Hypothetical_protein_SPPV_50__NP_659626__Sheeppox_virus__10266__D1-82_143-236
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03159.25 best | XRN_N | 147.0 | 8.90e-43 | 88.0% | 90.0% |
D3
medium
residues 232-342_362-372
Domain cluster:
rep: 5-3_exoribonuclease__YP_009001338__Pithovirus_sibericum__1450746__D237-336
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF17846.7 best | XRN_M | 45.3 | 8.80e-12 | 83.6% | 20.2% |
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3ripA02 | 1.20.120.1900 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Gamma-tubulin complex, C-terminal domain | 0.59 | 47.0 | 3.60e-01 | 83.6% | 100.0% |
| 1zp2A02 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.58 | 37.0 | 3.83e-01 | 91.8% | 67.9% |
| 2dgzA01 | 1.10.150.80 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain | 0.55 | 30.0 | 3.46e-01 | 70.5% | 71.9% |
| 2ze7A02 | 1.10.287.890 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain | 0.54 | 33.0 | 3.62e-01 | 71.3% | 74.5% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3175375 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.81 | 76.0 | 5.36e-01 | 100.0% | 48.8% |
| 3473140 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.81 | 74.0 | 5.41e-01 | 100.0% | 39.7% |
| 3595158 | 3279.1.1.0 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases | 0.80 | 70.0 | 5.25e-01 | 100.0% | 40.4% |
| 3276189 | 102.1.1.0 ↗ | alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like | 0.80 | 48.0 | 4.46e-01 | 73.8% | 48.1% |
| 4144327 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.79 | 75.0 | 5.40e-01 | 100.0% | 40.0% |
| 3592851 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.78 | 72.0 | 5.29e-01 | 100.0% | 44.3% |
| 3608857 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.75 | 70.0 | 5.22e-01 | 100.0% | 42.4% |
| 3684346 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.75 | 71.0 | 5.09e-01 | 100.0% | 44.8% |
| 3340442 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.72 | 66.0 | 5.57e-01 | 100.0% | 61.6% |
| 4027649 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.72 | 64.0 | 4.79e-01 | 100.0% | 41.1% |
| 3716031 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.69 | 64.0 | 4.72e-01 | 100.0% | 41.0% |
| 3499830 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.69 | 65.0 | 4.71e-01 | 100.0% | 44.4% |
| 3269897 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.69 | 65.0 | 4.65e-01 | 100.0% | 43.1% |
| 4017552 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.67 | 63.0 | 4.79e-01 | 100.0% | 52.7% |
| 3740824 | 101.1.10.22 ↗ | alpha arrays › HTH › HTH › Cyclin-like › ORC6 | 0.56 | 32.0 | 3.53e-01 | 71.3% | 69.5% |
| 3577210 | 5067.1.1.0 ↗ | alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain | 0.54 | 45.0 | 4.44e-01 | 91.0% | 90.0% |
| 3631867 | 3755.4.1.55 ↗ | alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › HeLo | 0.53 | 37.0 | 3.33e-01 | 70.5% | 78.2% |
D4
medium
residues 373-446
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF17846.7 best | XRN_M | 40.8 | 2.10e-10 | 96.0% | 13.8% |
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3vkgA11 | 1.20.920.20 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › | 0.54 | 43.0 | 3.89e-01 | 90.5% | 71.8% |
| 8amqA02 | 1.10.630.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 | 0.54 | 41.0 | 2.65e-01 | 82.4% | 65.1% |
| 3lnrA00 | 1.20.120.1530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.53 | 40.0 | 3.10e-01 | 81.1% | 48.8% |
| 7swlB02 | 1.10.8.60 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.52 | 38.0 | 3.45e-01 | 77.0% | 88.3% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3235178 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.89 | 80.0 | 5.13e-01 | 100.0% | 23.3% |
| 3340442 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.89 | 81.0 | 5.86e-01 | 100.0% | 38.4% |
| 3499830 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.88 | 83.0 | 5.26e-01 | 100.0% | 28.9% |
| 3608857 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.88 | 82.0 | 5.33e-01 | 100.0% | 26.2% |
| 3595158 | 3279.1.1.0 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases | 0.88 | 82.0 | 5.37e-01 | 100.0% | 27.5% |
| 3479825 | 3279.1.1.0 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases | 0.88 | 82.0 | 5.22e-01 | 100.0% | 28.4% |
| 4017552 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.87 | 80.0 | 5.33e-01 | 100.0% | 28.1% |
| 3684346 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.87 | 80.0 | 5.08e-01 | 100.0% | 23.2% |
| 3473140 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.86 | 78.0 | 5.03e-01 | 100.0% | 24.0% |
| 3175375 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.86 | 78.0 | 4.91e-01 | 100.0% | 21.2% |
| 3269897 | 3279.1.1.1 ↗ | alpha arrays › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › Helical domain in 5'->3' exoribonucleases › XRN_M | 0.84 | 78.0 | 4.97e-01 | 100.0% | 26.5% |
| 5013282 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.59 | 44.0 | 3.78e-01 | 79.7% | 100.0% |
| 3833919 | 148.1.3.19 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_3 | 0.58 | 41.0 | 3.62e-01 | 74.3% | 81.8% |
| 3957829 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.53 | 38.0 | 2.94e-01 | 86.5% | 35.5% |