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MF356679.1__ASR76419.1__D6_46__00046

Bact-Vir

MF356679.1__ASR76419.1__D6_46__00046

Identity

Accession:
MF356679 ↗
Kingdom:
phage

Quality

80.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Escherichia_phage_D6

TaxID: 2014434

Cluster

View cluster (46 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 7-29_86-188
PDB
Domain cluster: rep: OR475272.1__WNM67070.1__SEA_SCHOMBER_49__00049__D1-43_60-156
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2w5eA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.69 37.0 4.78e-01 89.7% 96.9%
4dq2A03 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.66 24.0 3.72e-01 89.7% 85.1%
2vxaA00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.65 34.0 4.44e-01 76.2% 95.5%
3kp0A03 3.30.30.60 Alpha Beta › 2-Layer Sandwich › Defensin A-like › D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain 0.63 34.0 4.31e-01 80.2% 95.5%
1bdfA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.62 38.0 4.12e-01 81.0% 71.7%
3nrbB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.61 31.0 3.69e-01 79.4% 71.1%
4f0qD01 2.30.280.20 Mainly Beta › Roll › PUA domain-like › 0.61 53.0 4.22e-01 94.4% 60.0%
2nyiA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.61 32.0 3.67e-01 73.0% 68.9%
2aiqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 42.0 4.38e-01 100.0% 80.5%
2f7vA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 40.0 4.27e-01 81.7% 79.6%
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.59 36.0 3.94e-01 82.5% 73.8%
2jn9A01 2.40.30.80 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › YkvR-like 0.58 41.0 4.62e-01 91.3% 100.0%
3mgjA00 3.30.70.2690 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › LOR/SDH bifunctional enzyme, conserved domain 0.58 35.0 3.97e-01 80.2% 79.2%
1go3E02 3.30.1490.120 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RNA polymerase Rpb7-like, N-terminal domain 0.57 36.0 4.34e-01 80.2% 98.8%
3ayhB01 3.30.1490.120 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RNA polymerase Rpb7-like, N-terminal domain 0.56 35.0 4.22e-01 75.4% 98.7%
3ec6A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 47.0 4.76e-01 98.4% 89.1%
2rb7A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 38.0 4.10e-01 81.7% 81.3%
5uejA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 38.0 4.01e-01 81.7% 78.1%
2hq7B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 48.0 4.68e-01 97.6% 85.2%
3pfeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 42.0 4.23e-01 81.7% 79.2%
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.54 47.0 4.83e-01 92.1% 97.5%
5aj3F00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.54 33.0 3.38e-01 81.0% 61.8%
2pokA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 42.0 3.80e-01 81.7% 84.1%
4mmoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 42.0 3.82e-01 81.7% 84.4%
3db0B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.54 44.0 4.52e-01 100.0% 91.1%
2htiA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 43.0 4.37e-01 99.2% 86.5%
2zogA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 41.0 3.69e-01 81.7% 81.6%
2a6hC06 2.40.50.150 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II, Rpb2 subunit, wall domain 0.52 38.0 3.75e-01 74.6% 97.0%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 38.0 3.20e-01 91.3% 43.8%
3pfoA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 39.0 3.92e-01 81.7% 77.3%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.51 35.0 4.02e-01 87.3% 95.6%
5choF00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 47.0 4.32e-01 99.2% 80.0%
4z9eA00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.51 34.0 4.06e-01 86.5% 100.0%
4ybnB00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 45.0 3.89e-01 98.4% 65.9%
2hq9B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.50 44.0 4.31e-01 98.4% 87.6%
4fprB00 3.30.70.2910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 34.0 3.41e-01 81.7% 66.4%
3ue2A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.50 29.0 3.43e-01 75.4% 81.8%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995818 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.89 82.0 8.27e-01 100.0% 96.0%
3944239 1.1.13.51 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_P2_GpU 0.73 58.0 6.27e-01 92.9% 100.0%
3980535 1.1.13.51 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_P2_GpU 0.72 64.0 6.25e-01 92.9% 91.9%
3966825 1.1.13.51 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_P2_GpU 0.71 60.0 6.21e-01 90.5% 100.0%
5082575 304.109.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.61 37.0 4.50e-01 81.0% 96.2%
4933855 872.1.1.1 ↗ a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like › SHS2_Rpb7-N 0.59 35.0 4.44e-01 71.4% 98.7%
2074267 1.1.5.23 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › T6SS_HCP 0.59 55.0 5.04e-01 100.0% 96.9%
5065758 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.59 39.0 3.67e-01 89.7% 56.0%
4944626 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.57 44.0 3.90e-01 81.7% 85.9%
5029814 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.57 30.0 4.11e-01 84.1% 100.0%
4929563 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.56 38.0 3.51e-01 89.7% 52.7%
4194689 1.1.5.57 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Mycop_pep_DUF31 0.56 51.0 3.58e-01 100.0% 38.8%
3174279 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.55 42.0 3.92e-01 81.7% 81.2%
5072978 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.55 42.0 3.77e-01 81.7% 84.4%
4928696 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 42.0 3.79e-01 81.7% 81.7%
1510566 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 42.0 3.81e-01 81.7% 84.1%
3661713 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.54 34.0 3.44e-01 81.7% 62.4%
3290869 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 40.0 4.05e-01 81.7% 76.8%
4977552 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 42.0 3.81e-01 81.7% 83.5%
3380308 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.54 33.0 3.45e-01 81.7% 65.0%
4015792 304.25.1.0 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.54 41.0 3.75e-01 81.0% 82.9%
5039711 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 41.0 3.76e-01 81.0% 82.9%
4498351 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.54 38.0 3.94e-01 81.7% 77.5%
3785649 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.53 41.0 3.68e-01 81.7% 78.9%
5010090 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.53 41.0 3.75e-01 81.7% 82.4%
5051470 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.53 41.0 3.88e-01 81.7% 78.1%
4092213 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.53 37.0 3.88e-01 81.7% 78.3%
3233980 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.53 31.0 3.60e-01 85.7% 81.1%
3280414 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.53 34.0 3.69e-01 75.4% 77.1%
3398784 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.52 31.0 3.10e-01 71.4% 56.6%
4981706 1.1.5.31 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Pyridox_ox_2 0.51 46.0 4.32e-01 98.4% 86.4%
4944223 304.25.1.11 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › Peptidase_M20 0.51 39.0 3.65e-01 81.7% 79.4%
4384999 76.1.1.1 ↗ beta duplicates or obligate multimers › beta-Prism I › beta-Prism I › beta-Prism I › Endotoxin_M 0.51 36.0 3.22e-01 74.6% 96.3%
3994249 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.51 44.0 4.16e-01 99.2% 78.7%
4944685 1.1.5.18 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › FMN_bind_2 0.50 46.0 4.33e-01 99.2% 88.7%
3477594 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 41.0 3.87e-01 88.9% 83.9%
4947401 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.50 45.0 4.22e-01 99.2% 86.5%
4945893 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.50 34.0 4.03e-01 86.5% 98.9%
D2 medium residues 39-78
PDB