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NC_048028.1__YP_009807743.1__HOT82_gp047__00047

Bact-Vir

NC_048028.1__YP_009807743.1__HOT82_gp047__00047

Identity

Accession:
NC_048028 ↗
Kingdom:
phage

Quality

86.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Ronaldovirus› Gordonia_phage_Ronaldo

TaxID: 2250397

Cluster

View cluster (351 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 10-124
PDB
Domain cluster: rep: MT764210__UXF49854.1__7841G1D8-26__00026__D257-398
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6toaF01 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.80 75.0 7.16e-01 100.0% 96.9%
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.79 70.0 6.98e-01 100.0% 91.6%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.78 73.0 6.86e-01 100.0% 91.2%
2l25A00 3.30.2000.20 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.73 67.0 6.24e-01 100.0% 92.9%
3fz2A00 3.30.70.1700 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phage minor tail protein U 0.73 67.0 6.50e-01 100.0% 95.3%
3uezC02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 37.0 4.35e-01 77.4% 72.3%
2lfpA01 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.69 62.0 5.89e-01 99.1% 91.2%
5wl1A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 42.0 4.46e-01 78.3% 69.3%
2c1iA01 3.30.565.50 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › 0.64 37.0 3.80e-01 100.0% 59.5%
4q7aC02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 45.0 4.63e-01 90.4% 77.8%
3ialA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.63 57.0 4.29e-01 100.0% 83.6%
4r6uA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 40.0 4.24e-01 78.3% 71.8%
6i9gA01 3.30.2400.30 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.63 43.0 3.86e-01 71.3% 74.0%
4fomA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 39.0 4.14e-01 77.4% 72.7%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 45.0 4.65e-01 90.4% 81.5%
1p1lA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 45.0 4.71e-01 91.3% 85.3%
3od1A01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.61 55.0 4.00e-01 99.1% 91.9%
1o0vA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 41.0 4.17e-01 78.3% 70.0%
3uebF00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.61 41.0 4.42e-01 100.0% 80.0%
3hriB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.61 55.0 4.02e-01 99.1% 91.0%
6sulA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 41.0 4.24e-01 81.7% 73.1%
1nvmB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.61 55.0 4.99e-01 100.0% 96.8%
1dq3A03 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.60 39.0 4.41e-01 93.9% 87.4%
2gx8A02 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 43.0 4.57e-01 90.4% 85.9%
4fpwB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.60 47.0 4.18e-01 83.5% 78.9%
3netB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.59 53.0 3.88e-01 100.0% 93.4%
2xgtA02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.59 54.0 3.86e-01 100.0% 86.4%
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 38.0 4.07e-01 78.3% 75.2%
3igqC00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.57 48.0 4.06e-01 89.6% 56.5%
6gdxA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 41.0 4.29e-01 90.4% 82.2%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.56 40.0 4.43e-01 98.3% 95.6%
3lvtA03 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 41.0 3.98e-01 92.2% 69.8%
6dw1A00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.55 49.0 4.05e-01 100.0% 81.0%
6b6lA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 4.06e-01 78.3% 78.9%
8owfA01 2.60.40.290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 43.0 4.42e-01 91.3% 87.4%
3jafA01 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.53 46.0 3.90e-01 100.0% 80.1%
4esqA00 3.40.1000.70 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › PknH-like extracellular domain 0.52 46.0 3.90e-01 97.4% 73.2%
2f86B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 40.0 3.87e-01 80.9% 92.2%
6d6tA01 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.52 46.0 3.84e-01 100.0% 79.5%
4o3vA00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.52 41.0 3.86e-01 83.5% 92.0%
7cu8E01 3.40.1000.70 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › PknH-like extracellular domain 0.51 45.0 3.92e-01 98.3% 77.5%
3mjgX03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 4.04e-01 78.3% 97.0%
4ofyD03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 4.14e-01 78.3% 97.9%
3b49A00 3.20.80.10 Alpha Beta › Alpha-Beta Barrel › Multidrug-efflux Transporter 1 Regulator Bmrr; Chain A › Regulatory factor, effector binding domain 0.51 39.0 3.29e-01 82.6% 96.1%
4kz1A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.51 41.0 3.84e-01 100.0% 71.1%
1t0pB00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 35.0 4.04e-01 78.3% 97.7%
2wyhA05 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 40.0 3.84e-01 92.2% 73.9%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004177 304.124.1.3 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF3168 0.86 81.0 7.91e-01 100.0% 97.6%
3941902 304.124.1.7 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Minor_capsid_3 0.85 80.0 7.75e-01 100.0% 98.4%
5040945 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.81 75.0 6.84e-01 100.0% 91.3%
4928893 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.80 75.0 6.87e-01 100.0% 94.5%
3585212 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.80 74.0 5.94e-01 100.0% 88.4%
4034595 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.80 75.0 7.38e-01 99.1% 98.3%
3589225 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.79 74.0 6.98e-01 100.0% 96.3%
3966645 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.79 73.0 7.06e-01 98.3% 98.4%
5083619 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.76 70.0 6.53e-01 100.0% 94.4%
4261744 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.75 70.0 6.79e-01 100.0% 97.6%
5078308 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.75 69.0 6.54e-01 100.0% 94.8%
4034134 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.74 66.0 6.45e-01 98.3% 98.4%
140398 304.124.1.4 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF4128 0.73 67.0 6.24e-01 100.0% 92.9%
4057397 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.73 51.0 5.10e-01 78.3% 71.3%
4196274 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.73 49.0 4.98e-01 83.5% 69.6%
364035 304.124.1.1 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Phage_tail_U 0.73 66.0 6.29e-01 100.0% 97.0%
4987319 1036.1.1.2 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › PF29994 0.71 39.0 4.07e-01 100.0% 56.4%
3802659 304.8.1.66 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › DUF7049 0.69 49.0 5.16e-01 84.3% 81.9%
144763 304.124.1.3 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF3168 0.68 62.0 5.95e-01 100.0% 95.5%
5060768 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 43.0 4.48e-01 78.3% 71.4%
3208925 11.1.1.965 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26150 0.66 44.0 4.17e-01 89.6% 56.4%
4319533 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.65 51.0 4.79e-01 83.5% 72.9%
4028502 305.1.1.0 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.64 46.0 4.59e-01 79.1% 71.7%
3265168 11.1.5.62 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CBM49 0.62 43.0 4.78e-01 78.3% 87.4%
3931830 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.62 49.0 4.18e-01 88.7% 53.3%
3929879 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.61 48.0 4.24e-01 88.7% 57.9%
5004168 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 39.0 4.04e-01 78.3% 67.3%
3179709 314.1.1.9 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_His 0.60 54.0 3.78e-01 100.0% 84.5%
3605908 304.31.1.3 ↗ a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › FAZ1_cons 0.59 44.0 4.39e-01 78.3% 76.7%
3265758 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.59 43.0 4.57e-01 88.7% 86.0%
3179676 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.59 43.0 3.12e-01 84.3% 26.5%
3251738 11.1.5.62 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CBM49 0.58 44.0 4.66e-01 87.8% 90.0%
3275804 11.1.5.62 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CBM49 0.58 44.0 4.40e-01 88.7% 76.7%
3353115 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.58 44.0 3.39e-01 99.1% 35.4%
4028991 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.58 43.0 3.04e-01 85.2% 24.3%
5079195 304.102.1.2 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruD 0.58 49.0 3.96e-01 93.9% 90.2%
3473096 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.57 50.0 4.15e-01 100.0% 80.9%
3274387 11.1.5.62 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CBM49 0.57 45.0 4.59e-01 88.7% 86.4%
4941817 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 44.0 4.52e-01 85.2% 86.2%
3552777 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 44.0 2.72e-01 85.2% 14.3%
3789126 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 44.0 3.07e-01 85.2% 38.2%
5069076 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.55 32.0 3.23e-01 97.4% 56.7%
5019198 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.55 49.0 4.91e-01 96.5% 97.4%
3496210 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.54 48.0 4.14e-01 99.1% 90.8%
3285854 4182.1.1.0 ↗ beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like 0.54 41.0 3.96e-01 78.3% 98.4%
5058953 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 47.0 4.42e-01 93.9% 81.4%
3707711 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 40.0 2.72e-01 90.4% 19.4%
5034560 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.54 32.0 3.23e-01 100.0% 58.3%
4322730 304.4.1.14 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Dabb 0.54 41.0 4.14e-01 87.8% 82.3%
3924477 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.53 42.0 3.97e-01 87.0% 85.5%
4932446 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.53 32.0 3.18e-01 100.0% 57.5%
152132 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.53 46.0 3.92e-01 100.0% 80.5%
3472250 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.53 46.0 3.90e-01 100.0% 82.0%
3599466 304.42.1.0 ↗ a+b two layers › Alpha-beta plaits › Molybdenum cofactor biosynthesis protein C, MoaC › Molybdenum cofactor biosynthesis protein C, MoaC 0.53 45.0 4.08e-01 93.9% 80.0%
3992575 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.52 42.0 3.80e-01 88.7% 72.7%
3290484 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.52 41.0 3.59e-01 84.3% 66.3%
3654241 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 41.0 2.58e-01 85.2% 22.8%