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NC_070780.1__YP_010650971.1__PP428_gp134__00134

Bact-Vir

NC_070780.1__YP_010650971.1__PP428_gp134__00134

Identity

Accession:
NC_070780 ↗
Kingdom:
phage

Quality

88.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Gaprivervirus› Escherichia_phage_vB_EcoM_RZ

TaxID: 2893954

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 8-66
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lruA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.74 63.0 5.44e-01 100.0% 80.6%
5teqA01 3.30.470.110 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › 0.72 63.0 4.27e-01 100.0% 26.6%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.72 59.0 5.02e-01 91.5% 77.3%
1n5uA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.69 53.0 4.39e-01 93.2% 47.6%
1kl7A02 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.66 53.0 3.44e-01 88.1% 26.3%
1dq3A02 3.30.160.90 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.65 48.0 4.53e-01 83.1% 72.4%
3oymA01 1.10.340.70 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.65 46.0 4.00e-01 100.0% 48.4%
1w9cA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.65 53.0 3.34e-01 91.5% 34.3%
1nrwA02 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.63 46.0 3.57e-01 89.8% 35.4%
8h6qD01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.62 51.0 3.20e-01 91.5% 20.2%
2jqtA00 1.20.1280.40 Mainly Alpha › Up-down Bundle › Monooxygenase › HHA 0.61 42.0 4.33e-01 79.7% 75.4%
3i8oA01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.58 46.0 3.58e-01 100.0% 39.8%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.58 44.0 3.73e-01 100.0% 47.6%
3tzeA02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.58 38.0 3.12e-01 84.7% 37.0%
4d0yA00 3.30.1380.10 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › 0.57 48.0 3.49e-01 98.3% 97.8%
3d3oA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.57 41.0 3.08e-01 81.4% 30.1%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.56 47.0 3.68e-01 100.0% 53.6%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.56 46.0 4.43e-01 93.2% 80.3%
3na2A00 3.40.1570.20 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › 0.55 45.0 3.54e-01 94.9% 88.4%
3v7nA01 3.90.1380.10 Alpha Beta › Alpha-Beta Complex › threonine synthase, domain 1, chain A › Threonine synthase, N-terminal domain 0.55 40.0 3.41e-01 78.0% 70.5%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.52 45.0 3.52e-01 100.0% 58.1%
3qavA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 40.0 3.05e-01 94.9% 35.0%
7qi3A01 3.30.2140.20 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › 0.52 45.0 2.86e-01 100.0% 28.1%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 44.0 4.12e-01 100.0% 76.0%
3d1cA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 42.0 2.81e-01 91.5% 39.5%
1f5xA00 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.51 44.0 3.07e-01 100.0% 47.1%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5022532 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.84 59.0 5.37e-01 72.9% 72.0%
3625974 284.1.3.4 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › CCTL2_WNK 0.75 65.0 5.73e-01 100.0% 85.6%
3979957 1.1.9.50 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PF28530 0.74 56.0 4.15e-01 81.4% 59.3%
3848799 3755.2.1.4 ↗ alpha bundles › YscO-like › Flagellar FliJ protein › Flagellar FliJ protein › PF26143 0.74 52.0 3.98e-01 91.5% 32.6%
3296177 103.5.1.4 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › HCS_D2 0.72 50.0 4.52e-01 72.9% 56.2%
3184714 103.5.1.4 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › HCS_D2 0.70 48.0 4.81e-01 71.2% 70.0%
4942943 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.66 59.0 4.79e-01 100.0% 59.1%
4978129 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.65 56.0 3.41e-01 100.0% 15.6%
3589429 4159.1.1.0 ↗ alpha arrays › SP0561-like › SP0561-like › SP0561-like 0.65 40.0 3.72e-01 100.0% 49.3%
4357827 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.64 46.0 4.39e-01 100.0% 65.2%
3367525 4.8.1.32 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Chromo_PTM 0.64 37.0 4.07e-01 94.9% 73.3%
865123 101.1.1.76 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.64 46.0 3.80e-01 100.0% 41.4%
3267034 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.63 44.0 4.67e-01 100.0% 92.0%
3962271 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.62 40.0 2.81e-01 88.1% 21.1%
3407864 109.1.1.29 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › Tom37+GST_C_6 0.61 47.0 3.48e-01 94.9% 31.2%
3368926 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 47.0 4.65e-01 94.9% 78.5%
3870636 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.61 47.0 4.57e-01 81.4% 80.0%
4076346 605.1.1.159 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › UPF0154 0.60 46.0 4.36e-01 88.1% 70.0%
3927046 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.59 42.0 4.35e-01 98.3% 83.6%
5070097 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.59 53.0 3.47e-01 98.3% 81.5%
3996291 4351.1.1.1 ↗ alpha arrays › ATP12-like › ATP12-like › ATP12-like › ATP12 0.59 49.0 3.43e-01 98.3% 69.5%
3701532 192.3.1.0 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain 0.59 38.0 3.29e-01 86.4% 43.3%
4012484 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.58 48.0 3.55e-01 91.5% 53.5%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 48.0 3.83e-01 93.2% 50.0%
4994253 101.1.2.894 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF2240 0.58 51.0 4.73e-01 100.0% 80.0%
3672413 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 48.0 4.28e-01 100.0% 76.7%
5062471 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.55 45.0 3.75e-01 94.9% 53.6%
3469087 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.54 44.0 4.27e-01 96.6% 97.1%
4478857 2011.2.1.1 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PNP_UDP_1 0.54 43.0 2.92e-01 86.4% 44.7%
4954645 148.1.1.0 ↗ alpha arrays › Histone-like › Histone-related › Histone 0.53 42.0 3.34e-01 100.0% 42.5%
5023640 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.53 45.0 4.15e-01 100.0% 93.7%
3693357 177.1.1.2 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › S1-P1_nuclease 0.53 45.0 3.04e-01 100.0% 27.6%
5008249 304.131.1.0 ↗ a+b two layers › Alpha-beta plaits › Phosphonoacetate hydrolase insertion domain › Phosphonoacetate hydrolase insertion domain 0.51 42.0 3.39e-01 100.0% 51.9%
3739944 109.4.1.570 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps8 0.51 44.0 2.48e-01 100.0% 10.1%
4380028 220.1.1.291 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_4 0.50 42.0 3.89e-01 98.3% 92.5%
3253378 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 44.0 3.39e-01 100.0% 63.0%