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NC_021306.2__YP_008051765.1__PBI_DUMBO_142__00140

Bact-Vir

NC_021306.2__YP_008051765.1__PBI_DUMBO_142__00140

Identity

Accession:
NC_021306 ↗
Kingdom:
phage

Quality

83.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kostyavirus› Mycobacterium_phage_Dumbo

TaxID: 1327764

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 5-59
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.85 69.0 6.60e-01 87.3% 79.0%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.84 69.0 5.35e-01 89.1% 48.2%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.82 67.0 5.47e-01 90.9% 49.5%
3t98B00 6.10.140.1350 Special › Helix non-globular › Helix Hairpins › 0.82 66.0 5.61e-01 87.3% 64.0%
1gaxA05 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.78 63.0 5.73e-01 89.1% 71.2%
6vq6G02 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 0.76 61.0 4.19e-01 89.1% 26.1%
1ujnA02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.76 60.0 4.25e-01 94.5% 28.6%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 62.0 5.38e-01 100.0% 58.8%
2fupA00 1.20.58.300 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › FlgN-like 0.75 68.0 5.14e-01 100.0% 90.6%
1u5eA01 6.10.250.220 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.75 57.0 5.80e-01 87.3% 86.8%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 56.0 5.38e-01 89.1% 70.3%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.75 59.0 4.68e-01 87.3% 42.9%
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 0.73 57.0 3.98e-01 87.3% 43.7%
3k3oA02 1.20.58.1360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 61.0 5.37e-01 100.0% 75.0%
2zttA00 6.10.140.720 Special › Helix non-globular › Helix Hairpins › 0.70 53.0 4.88e-01 83.6% 63.0%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.69 53.0 5.20e-01 87.3% 85.5%
2d9dA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.67 57.0 4.97e-01 100.0% 66.3%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.67 50.0 4.50e-01 87.3% 56.5%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.66 53.0 4.74e-01 89.1% 78.2%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.66 57.0 4.56e-01 100.0% 74.4%
3qybA01 1.10.10.2750 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.66 46.0 4.23e-01 78.2% 55.6%
4i9oA00 1.10.246.20 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Coactivator CBP, KIX domain 0.65 52.0 4.61e-01 85.5% 61.5%
1s9qA00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.64 52.0 3.52e-01 94.5% 45.5%
2b3tB01 6.10.140.1980 Special › Helix non-globular › Helix Hairpins › 0.63 43.0 4.17e-01 96.4% 63.1%
2y4tA02 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.62 49.0 5.00e-01 87.3% 96.2%
2a7oA00 1.10.1740.100 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Set2, Rpb1 interacting domain 0.58 49.0 3.97e-01 92.7% 64.0%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4018180 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.82 73.0 4.68e-01 100.0% 35.3%
3714091 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.81 66.0 5.88e-01 87.3% 64.0%
3413114 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.75 69.0 6.49e-01 100.0% 86.2%
2035518 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.73 63.0 5.62e-01 100.0% 74.7%
3635651 109.4.1.907 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › M-HEAT_ATR 0.71 62.0 4.80e-01 100.0% 59.2%
4357993 3291.1.1.58 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › QcrA_N 0.70 55.0 4.36e-01 89.1% 55.8%
4029168 4984.1.1.0 ↗ alpha bundles › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain 0.69 62.0 4.68e-01 100.0% 76.9%
5073229 109.4.1.207 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.65 53.0 3.26e-01 100.0% 14.2%
3579266 5055.1.1.11 ↗ extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel › Cation_ATPase_N 0.65 51.0 4.60e-01 87.3% 64.0%
3700685 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 54.0 3.34e-01 100.0% 45.9%
3505532 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.62 56.0 3.63e-01 100.0% 61.3%