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NC_049343.1__YP_009949262.1__HYO68_gp06__00006

Bact-Vir

NC_049343.1__YP_009949262.1__HYO68_gp06__00006

Identity

Accession:
NC_049343 ↗
Kingdom:
phage

Quality

77.9 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 113-210
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03237.22 best Terminase_6N 26.2 8.30e-06 43.9% 15.8%
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1i94H01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.73 44.0 4.90e-01 83.7% 76.9%
2zqeA00 3.30.1370.110 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.72 49.0 5.32e-01 85.7% 85.0%
1i6uA01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.69 43.0 5.00e-01 83.7% 89.7%
3gkuA03 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.69 44.0 4.94e-01 85.7% 87.3%
3f8kA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 41.0 3.73e-01 87.8% 45.0%
2fl4A02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 39.0 3.91e-01 87.8% 60.6%
3iayA07 1.10.132.60 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain 0.61 44.0 3.81e-01 75.5% 100.0%
3u6yA00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.58 46.0 4.65e-01 85.7% 84.8%
1vw4L01 3.90.1030.10 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › Ribosomal protein L17 0.58 45.0 4.11e-01 85.7% 84.4%
5k9nB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 42.0 3.31e-01 86.7% 36.8%
4v19R01 3.90.1030.10 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › Ribosomal protein L17 0.56 45.0 4.34e-01 87.8% 93.8%
3v97B04 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 40.0 3.19e-01 84.7% 36.3%
1htwA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 43.0 3.73e-01 84.7% 70.9%
5i3sC02 3.40.190.80 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › 0.55 35.0 3.17e-01 80.6% 47.0%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.53 43.0 3.26e-01 88.8% 49.0%
3uc4A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 35.0 3.70e-01 73.5% 76.5%
2h36X00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 41.0 4.03e-01 85.7% 85.2%
1yb2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 38.0 2.98e-01 83.7% 34.3%
6iaaA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 30.0 3.25e-01 84.7% 69.1%
5huoE01 3.90.1170.20 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Quinolinate phosphoribosyl transferase, N-terminal domain 0.50 41.0 3.71e-01 90.8% 94.2%
1g0hA02 3.40.190.80 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › 0.50 34.0 3.25e-01 80.6% 59.1%
2l6mA00 3.30.160.400 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 28.0 2.83e-01 92.9% 52.5%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3743748 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.77 48.0 5.02e-01 83.7% 68.9%
3384578 2004.1.1.135 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PIF1 0.73 51.0 3.90e-01 76.5% 32.3%
4208386 328.7.1.1 a+b two layers › IF3-like › Smr domain › Smr domain › Smr 0.73 49.0 5.38e-01 85.7% 85.0%
3236950 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.71 45.0 5.21e-01 84.7% 90.0%
4583415 320.2.1.1 a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.71 45.0 4.99e-01 83.7% 82.7%
3596806 328.7.1.0 a+b two layers › IF3-like › Smr domain › Smr domain 0.67 47.0 4.74e-01 84.7% 71.0%
3737985 320.1.1.1 a+b two layers › R3H domain-like › R3H domain › R3H domain › R3H 0.67 52.0 5.17e-01 100.0% 80.0%
3710687 320.1.1.0 a+b two layers › R3H domain-like › R3H domain › R3H domain 0.64 39.0 4.31e-01 85.7% 78.7%
4960125 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.63 43.0 3.14e-01 84.7% 26.7%
3262207 2003.1.5.73 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 0.60 42.0 3.32e-01 83.7% 34.1%
3515739 859.1.1.0 a+b two layers › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 0.59 41.0 3.53e-01 71.4% 98.7%
4928893 304.124.1.0 a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.59 50.0 4.38e-01 92.9% 83.4%
3972707 3186.1.1.1 a+b two layers › C-terminal domain of FliK › C-terminal domain of FliK › C-terminal domain of FliK › Flg_hook 0.58 42.0 4.25e-01 74.5% 100.0%
4120087 2003.1.5.20 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MethyltransfD12 0.58 43.0 2.94e-01 85.7% 22.0%
3835200 3556.1.1.0 a+b two layers › Uncharacterized Protein Rru_A0810 › Uncharacterized Protein Rru_A0810 › Uncharacterized Protein Rru_A0810 0.57 43.0 3.99e-01 81.6% 80.0%
3705557 4969.1.1.1 alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B 0.56 45.0 3.83e-01 86.7% 100.0%
3678638 7579.1.1.14 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_3 0.55 39.0 2.67e-01 75.5% 51.8%
4025377 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 41.0 4.35e-01 90.8% 95.3%
5050271 7587.1.1.1 a/b three-layered sandwiches › Rossmann-like domain in carbohydrate phosphatases › Rossmann-like domain in carbohydrate phosphatases › Rossmann-like domain in carbohydrate phosphatases › Inositol_P 0.53 35.0 3.35e-01 80.6% 56.7%
3813507 101.1.2.278 alpha arrays › HTH › HTH › winged helix domain › CNDH2_C 0.52 37.0 3.44e-01 90.8% 57.7%
3679417 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.52 39.0 3.59e-01 81.6% 77.7%
3342515 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 43.0 4.11e-01 100.0% 80.9%
D2 medium residues 1-90
PDB
Domain cluster: representative
Pfam (3)
AccessionNameScoreE-valueQ covHMM cov
PF01527.27 best HTH_Tnp_1 25.0 2.50e-05 76.7% 64.0%
PF06056.19 Terminase_5 97.2 5.70e-28 64.4% 100.0%
PF13384.13 HTH_23 31.8 1.30e-07 45.6% 68.0%
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ecoB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.71 51.0 4.54e-01 75.6% 69.0%
5z4zC00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 48.0 4.91e-01 72.2% 95.5%
3szpA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.67 47.0 4.76e-01 72.2% 94.4%
2qwtA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.61 53.0 4.39e-01 98.9% 72.5%
3nxcA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 48.0 3.91e-01 92.2% 63.3%
4ehsA00 1.10.860.10 Mainly Alpha › Orthogonal Bundle › DNAb Helicase; Chain A › DNAb Helicase; Chain A 0.57 47.0 4.37e-01 95.6% 90.3%
2rasA01 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 49.0 3.93e-01 100.0% 66.5%
2gfnA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 48.0 3.83e-01 95.6% 64.1%
3bhqA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 49.0 3.85e-01 100.0% 63.9%
6z0fA02 1.25.40.680 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type VII secretion system EssB, C-terminal-like domain 0.56 50.0 4.05e-01 96.7% 71.7%
5dlqB01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.55 44.0 2.75e-01 83.3% 18.9%
2pbxA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 49.0 3.80e-01 98.9% 66.0%
5d18A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.68e-01 96.7% 57.4%
3b81A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.79e-01 97.8% 79.8%
3vuqB00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 47.0 3.86e-01 100.0% 67.6%
3on4D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 47.0 3.77e-01 98.9% 70.8%
3zh9B03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.54 48.0 4.27e-01 98.9% 100.0%
2o7tA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 47.0 3.76e-01 100.0% 67.0%
2yveB00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 44.0 3.62e-01 92.2% 68.6%
3f1bA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 46.0 3.76e-01 100.0% 67.8%
3qkxB00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 44.0 3.59e-01 94.4% 64.1%
3c07B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 45.0 3.53e-01 100.0% 100.0%
3cqcB01 1.20.58.1380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 40.0 4.02e-01 86.7% 80.0%
3htaC00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 45.0 3.64e-01 100.0% 73.5%
3he0B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 45.0 3.65e-01 97.8% 62.4%
2dg8D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 46.0 3.76e-01 100.0% 79.8%
3ppbA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 44.0 3.50e-01 96.7% 61.2%
2oi8A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 45.0 3.51e-01 100.0% 60.1%
2azjA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.50 43.0 3.08e-01 96.7% 42.0%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.50 44.0 3.54e-01 98.9% 60.9%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3977377 101.1.2.836 alpha arrays › HTH › HTH › winged helix domain › Terminase_5 0.95 86.0 8.09e-01 94.4% 81.0%
3946793 101.1.1.259 alpha arrays › HTH › HTH › Three-helical HTH › Terminase_5 0.93 84.0 7.64e-01 95.6% 74.8%
3482349 604.12.1.2 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 0.76 45.0 5.31e-01 86.7% 83.1%
3953807 101.1.6.0 alpha arrays › HTH › HTH › TrpR 0.75 54.0 4.41e-01 75.6% 79.4%
4180990 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.71 39.0 4.11e-01 84.4% 60.0%
3250091 3948.1.1.0 alpha bundles › V(D)J recombination-activating protein 1 helical bundle domain › V(D)J recombination-activating protein 1 helical bundle domain › V(D)J recombination-activating protein 1 helical bundle domain 0.67 53.0 4.43e-01 100.0% 50.7%
3753969 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.65 36.0 3.51e-01 84.4% 48.0%
3411254 630.1.1.0 a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain 0.61 50.0 4.25e-01 86.7% 90.0%
3574713 109.26.1.1 alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.60 49.0 2.96e-01 84.4% 18.2%
3603138 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.60 49.0 4.35e-01 97.8% 61.5%
2035678 601.1.1.1 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Vinculin 0.58 41.0 3.40e-01 91.1% 41.6%
3633320 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.56 45.0 3.17e-01 84.4% 65.9%
3962081 101.1.1.5 alpha arrays › HTH › HTH › Three-helical HTH › TetR_N 0.56 47.0 4.15e-01 95.6% 87.1%
4980944 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.55 43.0 4.51e-01 82.2% 93.8%
3936156 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 50.0 3.88e-01 100.0% 56.3%
3789322 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.55 45.0 3.11e-01 87.8% 62.8%
3281267 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.54 48.0 3.83e-01 100.0% 68.4%
3589078 191.1.1.63 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_N 0.53 45.0 3.64e-01 96.7% 67.4%
3800337 109.26.1.1 alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.53 48.0 2.81e-01 100.0% 29.3%
5045435 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 39.0 3.21e-01 94.4% 44.4%
3957236 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.52 43.0 4.17e-01 93.3% 88.6%
4957898 191.1.1.63 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_N 0.51 45.0 3.51e-01 100.0% 63.5%
3236663 3691.1.1.1 alpha arrays › Phosphomannose isomerase helical insertion domain › Phosphomannose isomerase helical insertion domain › Phosphomannose isomerase helical insertion domain › PMI_typeI_hel 0.50 40.0 3.88e-01 84.4% 77.0%
60156 109.10.1.0 alpha superhelices › Repetitive alpha hairpins › Translin › Translin 0.50 41.0 3.20e-01 92.2% 67.3%