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NC_048874.1__YP_009859309.1__HWD30_gp2__00002

Bact-Vir

NC_048874.1__YP_009859309.1__HWD30_gp2__00002

Identity

Accession:
NC_048874 ↗
Kingdom:
phage

Quality

86.7 mean pLDDT

Taxonomy

Sangervirae› Phixviricota› Malgrandaviricetes› Petitvirales› Microviridae› Enterogokushovirus› Escherichia_phage_EC6098

TaxID: 2720215

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 6-78
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4r70B01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.71 43.0 3.06e-01 74.0% 21.7%
5d1oA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.69 49.0 4.92e-01 94.5% 75.3%
2vugA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.68 47.0 4.78e-01 94.5% 73.6%
5llyA02 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.66 39.0 2.93e-01 74.0% 23.2%
2qybA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.66 38.0 3.04e-01 71.2% 27.2%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.65 43.0 4.50e-01 80.8% 74.2%
2r6fA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.63 45.0 4.59e-01 97.3% 77.8%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.61 54.0 5.23e-01 98.6% 97.6%
3e9eB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.60 43.0 3.08e-01 76.7% 55.6%
1a8rA02 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.60 51.0 4.27e-01 97.3% 63.2%
3ahpA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 43.0 3.86e-01 79.5% 88.7%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.58 42.0 4.05e-01 76.7% 96.4%
2b9lA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 49.0 3.85e-01 100.0% 43.3%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.58 34.0 2.97e-01 72.6% 34.7%
5awwY00 1.10.3370.10 Mainly Alpha › Orthogonal Bundle › Preprotein translocase SecY subunit › SecY subunit domain 0.56 42.0 2.66e-01 82.2% 73.3%
3vz3A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 39.0 2.72e-01 78.1% 70.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.54 45.0 3.54e-01 97.3% 98.2%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 45.0 4.19e-01 95.9% 98.9%
3napC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 41.0 2.88e-01 87.7% 50.0%
3k50A02 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 37.0 3.41e-01 100.0% 54.0%
1n7zA01 2.60.340.10 Mainly Beta › Sandwich › baseplate structural protein gp8, domain 1 › baseplate structural protein gp8, domain 1 0.53 44.0 3.55e-01 100.0% 78.2%
5yl6A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.52 39.0 3.01e-01 82.2% 96.0%
3gqqA00 2.70.50.40 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › GMP phosphodiesterase, delta subunit 0.52 44.0 3.48e-01 100.0% 61.7%
2olsA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 44.0 3.58e-01 97.3% 98.6%
1kshB00 2.70.50.40 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › GMP phosphodiesterase, delta subunit 0.51 43.0 3.60e-01 100.0% 70.4%
1qwkA00 3.20.20.100 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › NADP-dependent oxidoreductase domain 0.51 42.0 2.82e-01 91.8% 31.7%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.50 42.0 3.92e-01 95.9% 96.8%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3963488 821.1.1.7 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › LEM-3_GIY-YIG 0.70 52.0 4.45e-01 79.5% 63.5%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.67 44.0 4.91e-01 79.5% 98.0%
3714622 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 36.0 3.06e-01 94.5% 34.2%
3838529 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.62 48.0 3.47e-01 87.7% 57.1%
2579422 4326.1.1.1 ↗ a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.61 54.0 4.98e-01 98.6% 85.1%
4977323 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 37.0 3.11e-01 72.6% 34.4%
4011808 304.12.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.60 53.0 4.52e-01 100.0% 90.0%
3959713 3702.1.1.0 ↗ beta complex topology › Penicillin binding protein dimerisation domain › Penicillin binding protein dimerisation domain › Penicillin binding protein dimerisation domain 0.60 41.0 2.77e-01 72.6% 20.0%
5020151 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.59 46.0 3.84e-01 97.3% 47.4%
3741339 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 37.0 3.42e-01 75.3% 49.5%
2469828 206.1.3.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › ATP-grasp_2 0.57 42.0 2.96e-01 78.1% 89.3%
3592234 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 34.0 2.99e-01 72.6% 39.1%
3839730 304.45.1.1 ↗ a+b two layers › Alpha-beta plaits › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase, HPPK › HPPK 0.56 46.0 3.58e-01 90.4% 74.1%
3715519 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 36.0 2.61e-01 74.0% 23.4%
4946181 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.54 46.0 3.94e-01 95.9% 83.3%
5058364 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.54 42.0 3.07e-01 86.3% 63.7%
4996083 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.53 41.0 2.98e-01 86.3% 62.6%
3598676 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 44.0 3.33e-01 95.9% 40.0%
3722075 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.53 38.0 2.59e-01 78.1% 65.2%
3740600 206.1.3.47 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Citrate_synth_N 0.51 39.0 2.65e-01 84.9% 82.0%
5042084 1075.3.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 0.51 39.0 2.40e-01 84.9% 89.8%
3966115 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.51 38.0 3.05e-01 83.6% 70.6%
4964256 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.50 35.0 3.00e-01 74.0% 82.4%