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term1_saliva_scaffold_3_curated_closed_complete_prodigal-single.1__X__X__00336

Bact-Vir

term1_saliva_scaffold_3_curated_closed_complete_prodigal-single.1__X__X__00336

Identity

Kingdom:
phage

Quality

72.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 7-97
PDB
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7dl8C01 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.77 56.0 5.74e-01 80.2% 78.7%
3iabB01 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.76 59.0 5.72e-01 81.3% 83.8%
1vm0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.74 55.0 5.52e-01 81.3% 77.4%
2h00B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.73 54.0 4.06e-01 82.4% 33.3%
3dr6B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.73 54.0 4.32e-01 82.4% 41.4%
2c7rA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.73 57.0 4.31e-01 83.5% 39.3%
2bkyX00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.72 54.0 5.60e-01 80.2% 87.2%
3pt9A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.72 59.0 4.04e-01 87.9% 28.0%
4fd4A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.71 56.0 4.21e-01 83.5% 36.8%
5k9nB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.71 56.0 4.20e-01 83.5% 37.8%
2p35A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.70 51.0 4.15e-01 79.1% 40.8%
3c6kB03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 51.0 4.02e-01 78.0% 38.5%
1ro5A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.68 48.0 3.81e-01 83.5% 35.8%
2ob0C01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 50.0 4.14e-01 83.5% 44.4%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.67 51.0 5.13e-01 81.3% 85.6%
2crqA01 3.30.110.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Translation initiation factor 3 (IF-3), C-terminal domain 0.66 50.0 5.12e-01 81.3% 87.2%
4ft4A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 59.0 3.89e-01 98.9% 50.3%
2ab5B01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.65 53.0 4.68e-01 100.0% 61.7%
4bluB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 47.0 3.37e-01 81.3% 27.5%
4atnA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 45.0 3.64e-01 78.0% 40.7%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.61 45.0 3.18e-01 100.0% 24.9%
1dfaA03 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.61 48.0 4.72e-01 97.8% 80.0%
3a7eA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 44.0 3.39e-01 81.3% 32.5%
4dkjA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 54.0 3.76e-01 100.0% 40.2%
2yqzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 50.0 3.98e-01 95.6% 50.8%
3qv2A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 51.0 4.02e-01 98.9% 55.0%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 44.0 3.40e-01 83.5% 42.9%
2oo3A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 48.0 3.47e-01 92.3% 82.4%
3tebB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.57 44.0 3.17e-01 82.4% 31.8%
1j4wA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.57 39.0 4.24e-01 71.4% 86.5%
3e23A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 51.0 3.95e-01 98.9% 51.0%
3htxD03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 42.0 3.20e-01 78.0% 96.4%
6fdfA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 50.0 3.93e-01 100.0% 55.9%
5wt3A03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 44.0 3.55e-01 84.6% 52.5%
1we8A01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.55 37.0 3.84e-01 72.5% 75.0%
3nyiA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.54 41.0 3.64e-01 82.4% 59.1%
3sm3A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 48.0 3.68e-01 100.0% 59.9%
3ramA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.14e-01 94.5% 71.2%
2bj0A00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.53 47.0 3.63e-01 96.7% 81.3%
2raaA00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.53 46.0 3.70e-01 96.7% 93.8%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 36.0 3.63e-01 81.3% 72.2%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.52 42.0 3.35e-01 89.0% 55.3%
4gafB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 39.0 3.70e-01 81.3% 66.4%
2k3iA01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 37.0 3.80e-01 98.9% 80.0%
1vq0A01 3.55.30.10 Alpha Beta › 3-Layer(bab) Sandwich › Hsp33 domain › Hsp33 domain 0.50 45.0 3.36e-01 100.0% 51.5%
1vzyA01 3.55.30.10 Alpha Beta › 3-Layer(bab) Sandwich › Hsp33 domain › Hsp33 domain 0.50 45.0 3.35e-01 100.0% 50.9%
2uuvB01 3.40.462.40 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidase, cap domain/gating helix 0.50 42.0 3.05e-01 93.4% 35.2%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3929905 328.1.1.1 a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.78 58.0 5.28e-01 78.0% 72.5%
3635611 328.1.1.3 a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.78 60.0 5.08e-01 81.3% 73.4%
3385565 320.1.1.16 a+b two layers › R3H domain-like › R3H domain › R3H domain › HP0268 0.76 56.0 6.06e-01 76.9% 100.0%
3695303 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.75 64.0 5.70e-01 93.4% 75.8%
4127809 328.1.1.1 a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.74 55.0 5.55e-01 78.0% 82.0%
3596783 328.1.1.0 a+b two layers › IF3-like › AlbA-like › AlbA-like 0.73 56.0 5.19e-01 81.3% 66.1%
4026790 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.72 56.0 3.96e-01 83.5% 27.9%
4026343 328.1.1.0 a+b two layers › IF3-like › AlbA-like › AlbA-like 0.72 54.0 5.40e-01 80.2% 78.9%
4980807 2003.1.5.14 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_3 0.72 51.0 3.88e-01 78.0% 32.7%
3223591 207.1.1.247 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › PF28313 0.72 55.0 3.66e-01 82.4% 21.1%
3793768 328.1.1.3 a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.72 54.0 4.98e-01 81.3% 74.2%
3603235 242.1.1.2 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 0.71 55.0 5.35e-01 100.0% 74.0%
3512301 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.70 54.0 3.69e-01 82.4% 24.1%
3520570 328.1.1.1 a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.70 55.0 5.17e-01 83.5% 72.7%
3554460 328.1.1.3 a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.70 53.0 5.10e-01 81.3% 71.4%
5064883 328.1.1.0 a+b two layers › IF3-like › AlbA-like › AlbA-like 0.68 51.0 3.83e-01 82.4% 32.4%
3931023 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.67 52.0 3.70e-01 81.3% 31.2%
327528 328.1.1.2 a+b two layers › IF3-like › AlbA-like › AlbA-like › SpoVS 0.67 51.0 5.13e-01 81.3% 85.6%
3602910 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.66 51.0 5.19e-01 100.0% 82.2%
4998393 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.66 49.0 4.59e-01 97.8% 64.5%
3597257 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.66 49.0 5.23e-01 82.4% 91.3%
3599895 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.66 46.0 3.36e-01 76.9% 27.0%
3401475 328.1.1.1 a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.65 49.0 4.32e-01 81.3% 62.9%
3358067 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.65 46.0 3.25e-01 82.4% 22.3%
3642967 246.3.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like 0.65 49.0 3.41e-01 83.5% 24.4%
3928198 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.64 49.0 4.90e-01 83.5% 91.6%
3211626 304.162.1.2 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › FLAD1_M 0.63 43.0 4.46e-01 100.0% 75.3%
4934117 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.63 46.0 4.77e-01 91.2% 81.2%
3741660 2003.1.5.73 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 0.63 47.0 3.39e-01 81.3% 26.2%
5030783 242.1.1.3 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › Hom_end 0.63 47.0 4.67e-01 97.8% 75.8%
5029542 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.63 47.0 4.49e-01 97.8% 67.6%
3959518 2003.1.5.14 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_3 0.63 46.0 3.63e-01 81.3% 36.4%
3606824 328.8.1.0 a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 0.62 48.0 4.21e-01 83.5% 62.1%
5048120 2003.1.5.20 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MethyltransfD12 0.62 47.0 3.22e-01 81.3% 33.2%
4975577 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.62 49.0 3.96e-01 97.8% 44.0%
4107956 1137.1.1.0 a+b two layers › Tetrapyrrole methylase C-terminal domain-like › Tetrapyrrole methylase C-terminal domain › Tetrapyrrole methylase C-terminal domain 0.62 46.0 4.28e-01 81.3% 75.0%
4946218 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.61 46.0 4.40e-01 96.7% 68.6%
4464568 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.61 46.0 4.52e-01 95.6% 73.0%
4029172 2003.1.5.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.60 54.0 3.60e-01 100.0% 31.9%
4023992 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.60 47.0 3.08e-01 84.6% 32.4%
3616172 304.162.1.2 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › FLAD1_M 0.60 42.0 4.44e-01 98.9% 82.5%
4946385 2004.1.3.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.60 41.0 3.20e-01 70.3% 51.5%
4940944 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.60 50.0 4.52e-01 100.0% 66.4%
3183014 2003.1.5.66 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.59 53.0 3.90e-01 98.9% 44.3%
4403450 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 0.59 41.0 3.80e-01 72.5% 59.2%
4665957 305.1.1.0 a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.59 40.0 3.87e-01 72.5% 61.0%
3704858 328.6.1.2 a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › RTC 0.59 52.0 3.81e-01 100.0% 90.6%
3292430 2003.1.5.31 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.58 47.0 3.06e-01 87.9% 53.6%
5053177 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.58 51.0 4.28e-01 100.0% 62.4%
4970999 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.58 52.0 4.30e-01 100.0% 68.5%
2159717 2003.1.5.13 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.56 50.0 4.01e-01 100.0% 51.6%
1890392 2003.1.5.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.56 43.0 3.12e-01 84.6% 34.3%
3523036 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.55 42.0 3.94e-01 80.2% 66.4%
3983446 101.1.2.84 alpha arrays › HTH › HTH › winged helix domain › CaiF_GrlA 0.55 42.0 4.12e-01 95.6% 76.0%
4981262 2003.1.5.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.55 46.0 3.44e-01 94.5% 38.4%
4932802 2003.1.5.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.54 46.0 3.65e-01 95.6% 52.6%
4026602 873.1.1.4 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › TRAPP 0.53 43.0 3.58e-01 92.3% 65.1%
2754119 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.53 45.0 3.11e-01 100.0% 48.6%
3657248 101.1.2.394 alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 0.53 43.0 4.12e-01 90.1% 81.0%
4880633 4169.1.1.1 a+b three layers › Coronavirus spike protein receptor-binding domain › Coronavirus spike protein receptor-binding domain › Beta-coronavirus spike protein receptor-binding domain › bCoV_S1_RBD 0.52 40.0 3.08e-01 80.2% 94.9%
5014341 2003.1.5.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.52 43.0 3.17e-01 94.5% 36.4%
3591086 301.8.1.0 a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase 0.51 39.0 3.25e-01 82.4% 81.2%
4243035 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.51 46.0 2.99e-01 100.0% 24.6%
4977841 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.51 38.0 4.02e-01 95.6% 92.5%
7178 873.1.1.5 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › HNOB 0.50 41.0 3.32e-01 91.2% 55.3%
4999757 304.6.1.1 a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C 0.50 43.0 3.20e-01 95.6% 44.6%