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KY940711.1__ARQ95359.1__X__00127

Bact-Vir

KY940711.1__ARQ95359.1__X__00127

Identity

Accession:
KY940711 ↗
Kingdom:
phage

Quality

82.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bradyrhizobium_phage_BDU-MI-1

TaxID: 1983459

Cluster

View cluster (2 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 11-74
PDB
Domain cluster: rep: NC_019405.1__YP_006987949.1__D865_gp053__00053__D27-73
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ahmH02 3.30.70.3540 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nsp8 replicase, head domain 0.72 48.0 4.27e-01 70.3% 57.0%
1ybyA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 40.0 4.03e-01 84.4% 59.4%
4kbmB01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.64 50.0 5.27e-01 96.9% 100.0%
2wfbA00 3.30.420.130 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Dinitrogenase iron-molybdenum cofactor biosynthesis domain 0.63 47.0 3.84e-01 79.7% 50.0%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.63 37.0 3.93e-01 95.3% 64.9%
5i4eA01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.62 40.0 4.49e-01 92.2% 91.3%
2lt1A00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.62 52.0 4.97e-01 96.9% 80.0%
1fr3A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.62 40.0 3.99e-01 84.4% 62.7%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.61 43.0 3.09e-01 75.0% 82.3%
5c2vB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 51.0 3.17e-01 93.8% 27.6%
6bhdA03 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 47.0 4.81e-01 98.4% 88.9%
2ckkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 44.0 4.76e-01 92.2% 96.2%
1ufvA02 3.30.1300.10 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › Pantoate-beta-alanine ligase, C-terminal domain 0.59 44.0 3.89e-01 81.2% 70.7%
2do3A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.59 41.0 4.52e-01 95.3% 94.1%
3goxA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.59 43.0 4.63e-01 95.3% 98.0%
1xf1A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 48.0 4.22e-01 95.3% 96.0%
4m4zA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 40.0 4.48e-01 92.2% 100.0%
7u32F02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.58 42.0 4.61e-01 90.6% 98.0%
2rghA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 49.0 3.30e-01 95.3% 84.7%
1n27A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.57 42.0 3.68e-01 95.3% 53.1%
5flxf00 6.20.50.150 Special › Other non-globular › N-terminal domain of TfIIb › 0.55 32.0 3.12e-01 84.4% 47.9%
1r5bA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.55 49.0 4.39e-01 100.0% 89.9%
1y0nA00 1.10.10.610 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › YehU-like 0.55 39.0 3.85e-01 76.6% 97.2%
3dlsB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.55 45.0 4.02e-01 95.3% 87.8%
2lydA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 45.0 3.65e-01 95.3% 69.4%
1fl2A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 49.0 3.92e-01 100.0% 71.8%
2zbwA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 48.0 3.90e-01 100.0% 74.0%
3lzwA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 48.0 3.93e-01 100.0% 73.1%
3f8dA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 48.0 3.87e-01 100.0% 71.5%
7e52A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 48.0 3.81e-01 100.0% 71.9%
3zuaA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.53 43.0 3.50e-01 96.9% 44.3%
5hy7B02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 44.0 2.89e-01 95.3% 27.7%
4j6oA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.53 41.0 2.76e-01 85.9% 89.7%
1q25A02 2.70.130.10 Mainly Beta › Distorted Sandwich › Cation-dependent Mannose-6-phosphate Receptor; Chain A › Mannose-6-phosphate receptor binding domain 0.53 43.0 3.34e-01 95.3% 68.6%
2evrA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 43.0 4.19e-01 95.3% 86.5%
4hkhA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.52 42.0 3.23e-01 90.6% 87.9%
1khcA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 41.0 4.17e-01 96.9% 89.2%
1x05A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 42.0 3.47e-01 95.3% 72.1%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 45.0 4.37e-01 100.0% 95.8%
1bkbA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 40.0 4.03e-01 89.1% 89.2%
1x6gA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 42.0 3.99e-01 96.9% 76.5%
1x9mA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.50 35.0 2.48e-01 75.0% 32.3%
7q04F01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.50 38.0 3.24e-01 82.8% 59.6%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4043601 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.73 43.0 4.34e-01 81.2% 56.9%
4997767 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 47.0 5.41e-01 93.8% 100.0%
5004390 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.69 50.0 4.11e-01 76.6% 42.6%
4930465 4294.1.1.0 ↗ few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like 0.69 43.0 4.51e-01 78.1% 68.3%
4990889 283.1.1.0 ↗ a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase 0.69 61.0 5.36e-01 100.0% 77.9%
4945025 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.68 48.0 4.08e-01 76.6% 49.1%
5023740 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 46.0 5.03e-01 96.9% 92.0%
5011717 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.66 47.0 3.90e-01 76.6% 43.6%
11249 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.66 48.0 3.90e-01 76.6% 46.6%
4982334 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 45.0 4.77e-01 96.9% 83.6%
5056706 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 44.0 4.83e-01 98.4% 94.0%
4957409 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 42.0 4.61e-01 96.9% 88.0%
1117748 1.1.13.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Caud_tail_N 0.63 45.0 3.89e-01 76.6% 97.1%
139373 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.63 47.0 3.84e-01 79.7% 50.0%
5002449 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 43.0 4.53e-01 96.9% 83.6%
4944932 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.63 45.0 3.81e-01 76.6% 50.5%
4947995 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 45.0 4.80e-01 98.4% 90.9%
3167568 101.46.1.0 ↗ alpha arrays › HTH › Parafibromin N-terminal domain › Parafibromin N-terminal domain 0.61 54.0 4.40e-01 100.0% 55.0%
3689167 2003.6.1.5 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › Phos_pyr_kin 0.61 45.0 2.92e-01 81.2% 51.0%
4011604 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.60 47.0 4.55e-01 96.9% 74.7%
5014317 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.59 41.0 3.86e-01 82.8% 58.7%
3500542 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.58 48.0 4.31e-01 100.0% 65.6%
3501741 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.58 44.0 4.50e-01 89.1% 86.7%
4478971 4.1.1.174 ↗ beta barrels › SH3 › SH3 › SH3 › DUF951 0.58 45.0 4.52e-01 98.4% 84.6%
3557649 4.8.1.20 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › PWP3A-B_N 0.58 47.0 4.01e-01 95.3% 55.2%
3414426 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.57 51.0 3.49e-01 100.0% 46.7%
3926623 4184.1.1.0 ↗ beta barrels › MFPT repeat › MFPT repeat › MFPT repeat 0.57 50.0 4.80e-01 96.9% 84.9%
3750522 4.1.1.218 ↗ beta barrels › SH3 › SH3 › SH3 › PWP3A-B_N 0.56 44.0 3.73e-01 92.2% 50.0%
4306905 2003.1.2.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_3 0.56 51.0 3.96e-01 100.0% 66.7%
None — 0.56 46.0 2.92e-01 93.8% 64.7%
5017134 208.1.1.1 ↗ beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Hexapep 0.55 43.0 3.07e-01 100.0% 27.7%
3902975 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.55 45.0 4.69e-01 93.8% 98.3%
3942998 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.55 45.0 4.45e-01 93.8% 84.3%
4962274 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 37.0 4.16e-01 90.6% 100.0%
4929258 5.1.4.163 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Vgb_lyase 0.54 43.0 2.76e-01 87.5% 22.5%
3925803 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 45.0 3.87e-01 96.9% 78.2%
3333322 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.54 44.0 3.47e-01 100.0% 43.0%
3596561 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.53 40.0 3.96e-01 81.2% 92.9%
3991453 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 42.0 2.90e-01 89.1% 25.2%
5025933 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 38.0 3.38e-01 78.1% 71.6%
3342793 4.1.1.42 ↗ beta barrels › SH3 › SH3 › SH3 › Agenet 0.52 46.0 3.30e-01 100.0% 37.9%
4928567 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.52 42.0 2.79e-01 96.9% 66.3%
5047657 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 33.0 3.55e-01 73.4% 78.2%
3697241 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.51 37.0 3.92e-01 76.6% 94.3%
4472981 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.51 40.0 3.56e-01 87.5% 70.7%
4960051 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.51 41.0 3.12e-01 93.8% 89.7%
3948516 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.51 40.0 4.03e-01 87.5% 89.2%
4674963 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.51 41.0 3.69e-01 92.2% 87.4%
5081385 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.50 40.0 2.51e-01 90.6% 58.3%
3213215 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.50 42.0 3.57e-01 96.9% 53.9%
4547689 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.50 42.0 3.80e-01 95.3% 87.8%