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NAD-dependent_DNA_ligase

Euk-Vir

Acanthamoeba_polyphaga_moumouvirus

NAD-dependent_DNA_ligase__YP_007354586__Acanthamoeba_polyphaga_moumouvirus__1269028

Identity

Accession:
YP_007354586 ↗
Protein ID:
NAD-dependent_DNA_ligase
Kingdom:
euk

Quality

68.3 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Imitervirales› Mimiviridae› Moumouvirus› Acanthamoeba_polyphaga_moumouvirus

TaxID: 1269028

Cluster

Singleton — not in a non-trivial cluster

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 515-669
PDB
Domain cluster: rep: OQ622096.1__WGH28569.1__13VV501A_gene0073__00071__D542-667
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00271.38 best Helicase_C 45.7 9.70e-12 72.3% 98.2%
D2 high residues 767-831
PDB
Domain cluster: rep: MN095770.1__QFR57709.1__CPT_Slocum_152__00129__D178-251
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00533.34 best BRCT 39.1 1.00e-09 96.9% 75.6%
PF12738.14 PTCB-BRCT 30.3 4.90e-07 90.8% 76.2%
D3 medium residues 1-122_307-328
PDB
Domain cluster: rep: putative_E3_ubiquitin_ligase__YP_009052309__Aureococcus_anophagefferens_virus__1474867__D26-104_197-245
D4 medium residues 123-192_231-306
PDB
D5 medium residues 329-426
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.78 42.0 4.47e-01 83.7% 60.0%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.69 38.0 4.07e-01 83.7% 60.9%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.67 51.0 4.44e-01 79.6% 58.6%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.65 45.0 4.40e-01 92.9% 66.0%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.61 43.0 3.93e-01 81.6% 54.1%
4dyqA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.60 44.0 4.38e-01 77.6% 93.2%
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.59 44.0 4.24e-01 81.6% 69.6%
2v0xA01 1.10.287.3160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 48.0 4.09e-01 92.9% 64.3%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.57 43.0 4.21e-01 80.6% 71.6%
6t4hA03 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.57 46.0 3.87e-01 88.8% 80.8%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.56 42.0 4.03e-01 80.6% 69.4%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.55 48.0 3.21e-01 99.0% 86.6%
1u7lA02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.54 44.0 3.64e-01 90.8% 85.2%
3t5vA00 1.25.40.990 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 40.0 2.75e-01 78.6% 29.8%
1ki1B01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.53 44.0 3.59e-01 94.9% 72.4%
2j1dG01 1.20.58.2220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Formin, FH2 domain 0.51 44.0 3.05e-01 100.0% 61.1%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 43.0 3.69e-01 92.9% 63.6%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3301847 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.82 46.0 4.62e-01 90.8% 55.0%
3738337 604.3.1.1 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.81 47.0 4.64e-01 82.7% 55.2%
3626530 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.78 50.0 5.07e-01 83.7% 66.3%
3904075 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.73 43.0 4.17e-01 88.8% 52.7%
3242499 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.72 51.0 3.81e-01 83.7% 32.7%
3717682 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.70 53.0 4.19e-01 79.6% 60.0%
3721656 630.1.1.2 ↗ a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › PF29521 0.66 55.0 4.87e-01 86.7% 65.9%
1870497 3271.1.1.1 ↗ alpha arrays › CdiA C-terminal nuclease domain › CdiA C-terminal nuclease domain › CdiA C-terminal nuclease domain › Ntox28 0.66 43.0 4.33e-01 84.7% 64.4%
5051764 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.66 47.0 4.01e-01 73.5% 63.9%
3178532 109.4.1.1764 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF28917 0.65 55.0 4.04e-01 90.8% 51.4%
3214189 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 47.0 4.66e-01 81.6% 72.4%
3921951 632.8.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 0.62 47.0 5.03e-01 88.8% 90.6%
3717348 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.62 56.0 3.42e-01 99.0% 38.7%
4937418 4156.1.1.6 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Helicase_dom4_arc 0.61 48.0 4.04e-01 83.7% 80.6%
3235794 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.60 50.0 4.36e-01 86.7% 87.1%
3394455 3602.1.1.17 ↗ alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › KIF21A_4th 0.60 51.0 3.46e-01 89.8% 33.3%
3781050 630.1.1.4 ↗ a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › PF28952 0.59 44.0 4.25e-01 79.6% 78.3%
3614441 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.56 49.0 4.13e-01 93.9% 81.9%
1879027 244.1.1.6 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › Amino_oxidase 0.56 48.0 3.21e-01 92.9% 36.2%
3607135 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.54 48.0 4.26e-01 93.9% 72.6%
3238417 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.53 40.0 3.96e-01 80.6% 78.1%
D6 medium residues 427-502
PDB