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NC_053505.1__YP_010012633.1__J4T94_gp047__00047

Bact-Vir

NC_053505.1__YP_010012633.1__J4T94_gp047__00047

Identity

Accession:
NC_053505 ↗
Kingdom:
phage

Quality

81.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vilmaviridae› Lumosvirus› Mycobacterium_phage_Krypton555

TaxID: 2015885

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 9-56
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6vddA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.89 56.0 4.06e-01 95.8% 27.0%
3ifrB02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.75 55.0 3.46e-01 79.2% 93.8%
7l9pK01 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.68 50.0 3.76e-01 79.2% 31.9%
1sfxB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 54.0 4.20e-01 93.8% 81.7%
4p5aC00 3.30.1360.170 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.63 55.0 3.52e-01 100.0% 21.1%
4gczB03 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.63 49.0 3.40e-01 85.4% 39.1%
1k8iA01 3.10.320.10 Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 0.62 47.0 4.06e-01 95.8% 51.9%
2xzm901 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.62 50.0 4.44e-01 91.7% 75.0%
1rmdA02 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.59 35.0 4.02e-01 70.8% 96.7%
1qhoA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 43.0 2.56e-01 87.5% 21.4%
2e5vA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 43.0 2.76e-01 91.7% 24.7%
2kqrA01 3.30.1910.20 Alpha Beta › 2-Layer Sandwich › so0334 like fold › asparaginyl-tRNA synthetase, N-terminal domain 0.53 42.0 3.73e-01 89.6% 98.6%
7k98B04 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.52 39.0 2.61e-01 85.4% 24.7%
2drpA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 34.0 3.63e-01 77.1% 97.1%
4u9cA01 2.40.128.250 Mainly Beta › Beta Barrel › Lipocalin › 0.50 39.0 3.09e-01 95.8% 78.2%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3869401 376.1.3.4 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › FYVE_2 0.89 59.0 4.07e-01 81.2% 23.6%
4977369 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.74 67.0 4.14e-01 97.9% 74.0%
4969872 7581.1.1.12 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › ACP_syn_III_C 0.74 48.0 3.20e-01 97.9% 17.8%
4970593 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.71 63.0 3.95e-01 100.0% 74.0%
4932480 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.68 55.0 3.56e-01 89.6% 37.3%
5008527 7581.1.1.0 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like 0.67 48.0 3.32e-01 93.8% 23.1%
3939653 1089.1.1.1 ↗ a+b two layers › Asparaginal-tRNA synthetase N-terminal domain › Asparaginal-tRNA synthetase N-terminal domain › Asparaginal-tRNA synthetase N-terminal domain › AsnRS_N 0.65 50.0 4.25e-01 87.5% 52.0%
4172626 2004.1.1.146 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase 0.65 54.0 3.42e-01 97.9% 96.4%
4086430 321.1.1.7 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › GCS2 0.64 54.0 3.27e-01 95.8% 66.3%
1323525 2003.1.2.58 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox, Pyr_redox_2 0.63 47.0 3.04e-01 81.2% 98.2%
2141055 7581.1.1.12 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › ACP_syn_III_C 0.63 43.0 2.88e-01 95.8% 18.0%
3899800 621.1.1.0 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.63 57.0 3.90e-01 100.0% 37.4%
5078945 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.62 41.0 3.71e-01 70.8% 50.8%
4973712 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.61 43.0 3.84e-01 75.0% 87.1%
4270141 102.1.1.82 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › DNA_ligase_ZBD+HHH_5 0.60 46.0 3.50e-01 85.4% 52.2%
4097470 102.1.1.54 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › DNA_ligase_ZBD 0.55 44.0 3.43e-01 89.6% 99.0%
3308182 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.53 43.0 3.53e-01 91.7% 100.0%
3522813 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.52 37.0 3.17e-01 77.1% 96.2%
4340474 207.1.1.147 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRR_4, LRR_8, LRR_14 0.51 39.0 2.50e-01 93.8% 78.0%