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NC_070817.1__YP_010654895.1__PP513_gp34__00034

Bact-Vir

NC_070817.1__YP_010654895.1__PP513_gp34__00034

Identity

Accession:
NC_070817 ↗
Kingdom:
phage

Quality

90.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Howevirus› Gordonia_phage_Howe

TaxID: 1777061

Cluster

View cluster (4 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 4-63
PDB
Domain cluster: rep: ON464759.1__UTV60862.1__JDFnp1_74__00074__D5-72
Pfam (4)
AccessionNameScoreE-valueQ covHMM cov
PF13560.13 best HTH_31 44.1 3.00e-11 98.3% 79.7%
PF12844.14 HTH_19 45.3 9.40e-12 96.7% 79.7%
PF13443.13 HTH_26 23.9 5.50e-05 95.0% 71.4%
PF01381.29 HTH_3 64.5 9.90e-18 91.7% 96.4%
D2 medium residues 76-99_126-139_209-230
PDB
Domain cluster: representative
D3 medium residues 232-296
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jaqA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.68 55.0 3.86e-01 86.2% 37.0%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.67 49.0 5.05e-01 76.9% 91.9%
2i2xB01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.65 51.0 4.39e-01 84.6% 91.0%
2jrtA01 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 44.0 4.07e-01 72.3% 69.8%
3h5qA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.63 49.0 4.79e-01 84.6% 81.4%
2mh2A00 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 0.61 42.0 4.26e-01 72.3% 89.1%
7s03A01 1.10.10.1450 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 42.0 4.52e-01 86.2% 94.0%
2ggfA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.61 48.0 3.90e-01 90.8% 61.3%
4gtnA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.61 48.0 4.66e-01 87.7% 78.4%
1rm6D04 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.61 48.0 3.30e-01 87.7% 87.7%
4ezeB00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.61 43.0 2.81e-01 73.8% 64.0%
1vquA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.59 44.0 4.43e-01 84.6% 80.6%
3p3lA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.58 46.0 2.92e-01 93.8% 69.7%
6hxlB01 1.10.230.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 0.58 45.0 3.71e-01 84.6% 87.6%
3bulA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.57 46.0 4.27e-01 92.3% 90.8%
2ga1A02 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 0.57 44.0 4.35e-01 89.2% 77.5%
1tbxB00 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 0.56 46.0 4.14e-01 90.8% 85.6%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.54 43.0 4.14e-01 93.8% 100.0%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.54 41.0 3.95e-01 83.1% 91.9%
1hxiA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 43.0 3.70e-01 90.8% 52.7%
7v8uA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 43.0 3.09e-01 100.0% 59.6%
1zq3P00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.53 38.0 3.75e-01 75.4% 76.5%
7toiA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 39.0 2.86e-01 89.2% 62.3%
2jgdB02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.50 40.0 2.64e-01 92.3% 35.7%
6y04A01 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.50 41.0 3.14e-01 98.5% 59.3%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3953551 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.99 94.0 6.33e-01 98.5% 32.0%
4950654 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.92 86.0 5.94e-01 100.0% 36.8%
3987779 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 59.0 5.37e-01 100.0% 81.1%
3973770 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.65 49.0 4.30e-01 80.0% 78.9%
4218048 3236.1.1.1 ↗ alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger 0.61 46.0 3.16e-01 86.2% 47.9%
3265679 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.60 42.0 4.53e-01 87.7% 98.0%
5028152 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.58 42.0 4.27e-01 81.5% 93.8%
5054797 181.1.1.0 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.56 38.0 3.99e-01 90.8% 78.3%
3470303 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.55 39.0 3.76e-01 78.5% 66.3%
4023970 2004.1.1.17 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Myosin_head 0.55 48.0 2.76e-01 100.0% 74.9%
5046309 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.54 36.0 3.33e-01 80.0% 48.4%
3800929 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.53 33.0 2.03e-01 72.3% 9.8%
3459251 108.1.1.73 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7 0.52 36.0 3.50e-01 76.9% 67.5%