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DNA-3-methyladenine_glycosylase

Euk-Vir

Pandoravirus_inopinatum

DNA-3-methyladenine_glycosylase__YP_009120710__Pandoravirus_inopinatum__1605721

Identity

Accession:
YP_009120710 ↗
Protein ID:
DNA-3-methyladenine_glycosylase
Kingdom:
euk

Quality

76.7 mean pLDDT

Taxonomy

Pandoravirus› Pandoravirus_inopinatum

TaxID: 1605721

Cluster

View cluster (9 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 23-56_170-233
PDB
Domain cluster: rep: DNA-3-methyladenine_glycosylase__YP_008318746__Pandoravirus_dulcis__1349409__D53-76_191-255
D2 high residues 62-153
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2h56A02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.81 76.0 6.98e-01 100.0% 83.3%
4uobA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.77 71.0 6.33e-01 100.0% 83.3%
1pu6A02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.77 70.0 6.33e-01 100.0% 81.3%
2w9zA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.65 47.0 4.14e-01 75.0% 63.9%
1vj7B01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.60 49.0 4.00e-01 89.1% 85.5%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 41.0 3.69e-01 71.7% 81.5%
2vixA03 1.20.1280.240 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.59 45.0 4.24e-01 82.6% 67.3%
1n81A00 1.10.3030.10 Mainly Alpha › Orthogonal Bundle › Gametocyte protein Pfg27 › Gametocyte protein Pfg27 0.59 45.0 3.62e-01 82.6% 83.3%
3cr3A00 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.58 52.0 4.10e-01 100.0% 57.3%
2gfhA02 1.20.120.710 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain 0.58 45.0 4.65e-01 83.7% 96.5%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.58 38.0 3.92e-01 100.0% 70.5%
2knjA00 1.10.150.440 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.58 41.0 4.17e-01 100.0% 76.7%
4c2uA04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.58 50.0 4.20e-01 100.0% 55.6%
4f3xA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.57 44.0 3.16e-01 83.7% 77.4%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.56 40.0 3.86e-01 73.9% 73.8%
3n3uA00 1.10.3290.10 Mainly Alpha › Orthogonal Bundle › Fic-like fold › Fido-like domain 0.56 44.0 3.15e-01 85.9% 95.2%
3b0xA01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.56 44.0 4.52e-01 100.0% 92.0%
1h6gA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.55 38.0 3.54e-01 72.8% 83.1%
3juiA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 41.0 3.39e-01 83.7% 82.2%
6jitB02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.53 42.0 3.76e-01 88.0% 88.3%
2fu2A00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.52 38.0 4.02e-01 77.2% 96.2%
1e5rB02 1.10.1720.10 Mainly Alpha › Orthogonal Bundle › Proline Oxidase; Chain: A, Domain 2 › L-proline 3-hydroxylase, C-terminal domain 0.52 36.0 3.72e-01 90.2% 78.6%
4d3dB02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.52 41.0 3.76e-01 89.1% 89.1%
1w53A00 1.10.1240.30 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain 0.51 37.0 3.94e-01 76.1% 88.1%
6z3yB01 1.20.1530.20 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › 0.51 40.0 2.74e-01 88.0% 44.7%
6bs3B01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 44.0 3.08e-01 97.8% 93.3%
1o9jC01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.51 39.0 2.73e-01 81.5% 38.2%
4hfkB00 1.20.120.1620 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 35.0 3.52e-01 72.8% 84.7%
5g6rB02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.50 40.0 3.62e-01 88.0% 88.6%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3173916 102.1.2.1 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › HhH-GPD 0.82 76.0 5.43e-01 100.0% 41.2%
1558902 102.1.2.1 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › HhH-GPD 0.77 71.0 5.14e-01 100.0% 43.4%
3741827 610.3.1.3 ↗ alpha arrays › ERP29 C domain-like › GatB/GatE C-terminal domain › GatB/GatE C-terminal domain › tRNA_synt_1c_R1 0.64 37.0 2.98e-01 100.0% 29.4%
4941136 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.64 45.0 3.60e-01 73.9% 87.0%
5047770 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.62 43.0 4.36e-01 72.8% 77.4%
3925709 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 45.0 3.89e-01 77.2% 75.7%
5079648 601.28.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.58 42.0 4.26e-01 75.0% 80.0%
3589212 633.2.1.1 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein › EntA_Immun 0.56 38.0 4.14e-01 70.7% 98.7%
3354773 109.4.1.27 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › W2 0.56 44.0 3.54e-01 84.8% 78.8%
3884035 611.2.1.0 ↗ alpha bundles › N-cbl like › N-terminal domain of cbl (N-cbl) › N-terminal domain of cbl (N-cbl) 0.52 38.0 3.48e-01 76.1% 94.4%
3010206 129.1.1.19 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › RedAm-like_C 0.52 41.0 3.70e-01 88.0% 85.7%
None — 0.51 45.0 3.02e-01 98.9% 90.9%
2325537 129.1.1.19 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › RedAm-like_C 0.51 42.0 3.79e-01 91.3% 88.5%
4408293 131.1.1.24 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › tRNA_synt_2f 0.51 43.0 3.18e-01 100.0% 71.9%