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MF614628.1__ATE84725.1__phi3LM21_p39__00039

Bact-Vir

MF614628.1__ATE84725.1__phi3LM21_p39__00039

Identity

Accession:
MF614628 ↗
Kingdom:
phage

Quality

70.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sinorhizobium_phage_phi3LM21

TaxID: 2029634

Cluster

View cluster (241 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 13-28_48-129
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4w64B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.74 69.0 5.76e-01 100.0% 81.9%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.70 63.0 5.62e-01 98.0% 90.5%
3bpkA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.69 62.0 5.08e-01 99.0% 81.6%
3q0bX00 2.30.280.10 Mainly Beta › Roll › PUA domain-like › SRA-YDG 0.69 61.0 5.29e-01 96.9% 81.8%
3d37B01 2.30.300.10 Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold 0.69 57.0 4.67e-01 93.9% 50.0%
3fppA01 2.40.30.170 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain 0.66 48.0 4.72e-01 94.9% 71.2%
1k28D03 2.40.30.150 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Bacteriophage T4, Gp27, baseplate hub, domain 3 0.66 57.0 5.84e-01 95.9% 96.8%
2ptfA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.66 59.0 5.18e-01 100.0% 81.0%
5ejlA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.65 58.0 5.34e-01 96.9% 75.8%
3onrJ00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.65 41.0 4.85e-01 79.6% 92.6%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.65 55.0 4.83e-01 100.0% 62.6%
1twfB07 2.40.50.150 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II, Rpb2 subunit, wall domain 0.64 50.0 4.63e-01 82.7% 94.4%
2pmzB07 2.40.50.150 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II, Rpb2 subunit, wall domain 0.63 49.0 4.56e-01 82.7% 94.4%
6ruiB07 2.40.50.150 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II, Rpb2 subunit, wall domain 0.62 49.0 4.47e-01 82.7% 94.4%
2cc6A00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.61 39.0 4.68e-01 79.6% 98.4%
4ci2B02 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.61 51.0 4.77e-01 100.0% 72.8%
4hudA01 3.30.2000.40 Alpha Beta › 2-Layer Sandwich › STM4215-like › Myoviridae tail sheath stabiliser 0.61 55.0 4.30e-01 100.0% 89.0%
5yppA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.60 38.0 3.95e-01 81.6% 68.9%
1qzzA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 43.0 3.58e-01 88.8% 45.0%
2w59A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 44.0 4.43e-01 91.8% 80.0%
1ao7B00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 41.0 4.15e-01 91.8% 75.0%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.57 49.0 4.42e-01 94.9% 88.2%
3g2fA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 40.0 4.20e-01 91.8% 82.8%
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 43.0 4.33e-01 91.8% 79.2%
4j37A02 3.30.70.660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Pseudouridine synthase I, catalytic domain, C-terminal subdomain 0.56 43.0 3.44e-01 81.6% 67.4%
1rhfA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 37.0 3.82e-01 87.8% 72.5%
2nrqA00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.54 41.0 3.70e-01 81.6% 75.9%
1k8wA01 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.53 42.0 3.20e-01 86.7% 53.9%
3rtyB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.53 38.0 3.78e-01 77.6% 100.0%
3d2uA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 44.0 4.57e-01 91.8% 100.0%
4m4xA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 40.0 3.70e-01 81.6% 92.1%
1w99A03 2.100.10.10 Mainly Beta › Aligned Prism › Vitelline Membrane Outer Layer Protein I, subunit A › Pesticidal crystal protein, central domain 0.52 37.0 3.04e-01 72.4% 100.0%
4l3nA01 3.30.70.1840 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Spike protein, C-terminal core receptor binding subdomain 0.52 42.0 3.74e-01 87.8% 81.7%
1vs3A02 3.30.70.660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Pseudouridine synthase I, catalytic domain, C-terminal subdomain 0.52 39.0 3.51e-01 81.6% 84.7%
3blcA00 2.70.98.90 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.52 42.0 3.12e-01 90.8% 72.5%
2h6oA02 2.60.40.2810 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 44.0 3.85e-01 95.9% 76.8%
3pg1A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 40.0 3.70e-01 89.8% 64.3%
6iw2A01 2.60.98.10 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › Tick-borne Encephalitis virus Glycoprotein, domain 1 0.51 41.0 3.78e-01 88.8% 80.5%
2xcmC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 44.0 4.59e-01 95.9% 100.0%
4dn9B00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 34.0 3.45e-01 83.7% 69.1%
1k1yB02 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 43.0 3.23e-01 93.9% 81.7%
2p0lA00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.51 45.0 3.26e-01 96.9% 87.6%
7zgmA01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.50 43.0 3.23e-01 93.9% 80.3%
2k78A00 2.60.40.1850 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 45.0 4.14e-01 100.0% 82.5%
ECOD (68)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3967003 1.1.13.35 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_TTP_11 0.87 80.0 6.98e-01 98.0% 92.1%
2674670 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.86 81.0 6.58e-01 100.0% 74.4%
4157825 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.86 81.0 7.25e-01 100.0% 94.6%
5082881 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.86 78.0 7.14e-01 96.9% 96.8%
2595159 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.85 80.0 6.56e-01 100.0% 78.9%
4888726 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.85 79.0 6.54e-01 100.0% 81.1%
5083300 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.84 78.0 6.79e-01 100.0% 93.1%
2642579 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.82 76.0 6.80e-01 99.0% 92.3%
3502370 1.1.5.47 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_tube_2 0.82 77.0 6.38e-01 100.0% 90.6%
4954551 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.80 75.0 6.63e-01 100.0% 88.1%
2101633 1.1.13.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tube 0.79 73.0 5.98e-01 99.0% 74.9%
3942090 1.1.5.77 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_tube 0.78 72.0 5.93e-01 99.0% 77.6%
5002750 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.75 63.0 6.19e-01 89.8% 93.3%
3968432 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.73 59.0 5.77e-01 96.9% 80.0%
3969448 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.72 61.0 6.03e-01 90.8% 100.0%
4094235 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.72 61.0 5.61e-01 96.9% 71.2%
4319057 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.72 59.0 5.61e-01 96.9% 74.8%
4033579 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.72 62.0 5.73e-01 93.9% 99.2%
1914511 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.71 61.0 5.56e-01 96.9% 70.9%
4982153 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.71 66.0 4.70e-01 100.0% 43.0%
3511358 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.71 60.0 6.03e-01 92.9% 96.0%
4393593 1.1.13.5 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_GPD 0.71 60.0 6.09e-01 92.9% 93.7%
3615541 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.69 58.0 5.36e-01 94.9% 71.2%
4402697 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.69 60.0 5.55e-01 96.9% 75.8%
4562905 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.69 60.0 5.51e-01 96.9% 73.6%
4888732 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.68 61.0 5.25e-01 99.0% 80.1%
4096792 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.68 61.0 4.80e-01 99.0% 73.2%
4036849 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.68 61.0 5.49e-01 96.9% 71.4%
3256920 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 59.0 5.44e-01 98.0% 74.4%
4551243 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.68 58.0 5.37e-01 96.9% 72.8%
4960006 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.68 60.0 5.85e-01 98.0% 89.0%
3602499 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.67 61.0 5.52e-01 99.0% 88.5%
4513514 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.67 46.0 4.26e-01 71.4% 100.0%
4932693 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.67 48.0 4.50e-01 75.5% 100.0%
3786933 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.66 49.0 4.51e-01 77.6% 100.0%
3728982 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.66 49.0 4.44e-01 77.6% 96.9%
3792089 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.66 49.0 4.37e-01 77.6% 97.8%
3491434 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.65 47.0 4.25e-01 74.5% 100.0%
4992907 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.65 59.0 5.03e-01 99.0% 78.7%
4538400 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.65 59.0 5.32e-01 98.0% 74.6%
3909822 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 57.0 5.54e-01 95.9% 90.0%
5070341 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.65 48.0 4.40e-01 76.5% 100.0%
3302882 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.65 48.0 4.45e-01 77.6% 97.6%
4030042 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.65 48.0 4.33e-01 77.6% 97.7%
3936663 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 57.0 5.28e-01 96.9% 88.0%
3943689 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.64 55.0 5.29e-01 92.9% 87.3%
4202541 1.1.9.23 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › DUF473 0.64 57.0 5.40e-01 99.0% 85.2%
3981111 1.1.7.89 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.63 52.0 4.46e-01 95.9% 56.1%
4349207 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.63 57.0 4.95e-01 100.0% 67.8%
3369437 1.1.9.5 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.62 55.0 4.10e-01 98.0% 74.4%
4444321 1.1.9.5 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.62 55.0 4.27e-01 98.0% 80.5%
3650798 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 41.0 3.94e-01 92.9% 58.3%
3944430 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.62 53.0 5.18e-01 93.9% 89.5%
3990261 389.4.1.7 ↗ few secondary structure elements › EGF-like › Fibulin-4 EGF-like 1 domain › Fibulin-4 EGF-like 1 domain › TIL_2 0.57 34.0 4.11e-01 80.6% 90.8%
3259730 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.57 50.0 4.81e-01 95.9% 84.5%
4002415 389.2.1.3 ↗ few secondary structure elements › EGF-like › Serine protease inhibitors › Serine protease inhibitors › TIL_2 0.57 35.0 4.21e-01 80.6% 93.8%
3990370 387.1.1.0 ↗ few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related 0.55 34.0 4.01e-01 78.6% 93.8%
3990367 389.4.1.7 ↗ few secondary structure elements › EGF-like › Fibulin-4 EGF-like 1 domain › Fibulin-4 EGF-like 1 domain › TIL_2 0.53 37.0 4.04e-01 84.7% 88.7%
3260215 223.2.1.22 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Folliculin 0.52 39.0 3.00e-01 78.6% 48.4%
4016759 3385.1.1.0 ↗ beta barrels › Allergen Alt a 1 › Allergen Alt a 1 › Allergen Alt a 1 0.52 41.0 3.65e-01 84.7% 88.6%
4933784 304.102.1.7 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › Pus10_C 0.52 41.0 3.19e-01 85.7% 61.4%
3754223 304.102.1.4 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N 0.51 40.0 3.08e-01 86.7% 51.8%
2900289 12.3.1.28 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_92N 0.51 43.0 3.26e-01 91.8% 67.4%
4126423 304.102.1.6 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N,TruB_C_2 0.51 40.0 3.17e-01 85.7% 51.2%
3614271 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 44.0 3.94e-01 93.9% 96.3%
5024648 304.102.1.7 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › Pus10_C 0.51 40.0 3.15e-01 88.8% 63.9%
5063453 304.102.1.7 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › Pus10_C 0.50 40.0 3.05e-01 85.7% 54.3%
4042627 5084.1.1.10 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › OMP_b-brl 0.50 41.0 3.48e-01 89.8% 91.1%