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SR-VP_2-4_scaffold_141_2548329_prodigal-single.1__X__X__00028

Bact-Vir

SR-VP_2-4_scaffold_141_2548329_prodigal-single.1__X__X__00028

Identity

Kingdom:
phage

Quality

82.7 mean pLDDT

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 32-190
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00075.31 best RNase_H 30.9 3.90e-07 88.7% 95.7%
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4e19A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.88 71.0 7.80e-01 90.6% 99.2%
3u3gA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.86 73.0 7.78e-01 93.1% 99.3%
1bqnA05 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.84 62.0 6.76e-01 89.3% 91.6%
2ehgA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.80 71.0 7.41e-01 97.5% 100.0%
1f21A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.79 69.0 7.08e-01 95.0% 94.7%
2hb5A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.79 65.0 6.67e-01 95.0% 90.0%
2qkbA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.78 68.0 6.99e-01 90.6% 96.7%
7kseA02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.77 64.0 6.70e-01 86.2% 100.0%
4ibnA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.77 73.0 6.81e-01 98.7% 87.2%
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.69 23.0 3.25e-01 100.0% 59.3%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.66 23.0 3.75e-01 98.1% 83.3%
7r8iA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.66 54.0 4.85e-01 86.8% 98.2%
2g8kA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.66 51.0 5.51e-01 86.2% 95.6%
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 24.0 3.43e-01 98.7% 69.7%
4orlA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.64 24.0 2.91e-01 100.0% 50.0%
5aj3K00 3.30.420.80 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribosomal protein S11/S14 0.59 39.0 4.19e-01 76.7% 77.9%
4exrA02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 19.0 2.86e-01 98.1% 63.4%
2wjsA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.58 33.0 3.21e-01 79.2% 49.7%
2qh9A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.58 49.0 4.73e-01 89.9% 97.2%
1z05A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.56 44.0 4.45e-01 84.3% 84.4%
3qktD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 39.0 3.06e-01 71.7% 91.2%
4bs9A05 3.30.160.660 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 29.0 3.40e-01 84.9% 71.9%
1xfdA02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 41.0 3.52e-01 81.1% 84.6%
2d5lA02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 40.0 3.43e-01 81.1% 83.3%
1z8hA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 40.0 3.69e-01 81.1% 90.6%
3u4gA00 3.40.50.10210 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (CobT), large domain 0.51 39.0 3.14e-01 79.9% 88.0%
3auxA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 37.0 2.85e-01 73.6% 92.0%
1w5dA02 3.50.80.20 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-Ala-D-Ala carboxypeptidase C, peptidase S13 0.51 33.0 3.86e-01 83.0% 100.0%
2hu8A02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 39.0 3.32e-01 80.5% 80.5%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 39.0 3.45e-01 84.3% 81.9%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032398 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.90 72.0 7.94e-01 92.5% 100.0%
4383357 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.89 76.0 8.09e-01 95.0% 98.6%
3834310 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.89 72.0 7.42e-01 91.2% 88.0%
4626944 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.89 68.0 7.67e-01 88.1% 100.0%
3590547 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.89 71.0 7.80e-01 89.9% 100.0%
3458417 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.88 75.0 7.52e-01 99.4% 87.5%
4969849 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.87 72.0 7.79e-01 91.2% 100.0%
3257339 2484.1.1.212 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RT_RNaseH 0.86 65.0 7.34e-01 87.4% 98.4%
3833907 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.86 74.0 7.62e-01 99.4% 94.0%
3359481 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.85 71.0 7.53e-01 98.1% 97.1%
148487 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.85 72.0 7.66e-01 93.1% 99.3%
3651277 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.85 73.0 7.29e-01 99.4% 87.1%
3798756 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.85 72.0 7.47e-01 92.5% 93.3%
5016440 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.85 70.0 7.45e-01 88.7% 96.4%
3526923 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.84 64.0 6.90e-01 86.2% 91.9%
5045679 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.83 59.0 6.70e-01 73.0% 100.0%
3808123 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.83 73.0 7.53e-01 97.5% 95.4%
3878642 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.83 70.0 6.57e-01 95.6% 74.6%
3454314 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.83 57.0 6.58e-01 71.7% 93.3%
3452851 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.83 68.0 7.34e-01 94.3% 99.3%
3804438 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.81 71.0 7.18e-01 96.2% 92.9%
3966848 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.81 69.0 7.25e-01 94.3% 97.2%
4046363 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.81 70.0 7.05e-01 91.2% 89.9%
3927914 2484.1.1.212 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RT_RNaseH 0.81 63.0 6.84e-01 91.8% 94.8%
4309543 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.80 68.0 7.28e-01 88.7% 100.0%
3803688 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.80 71.0 7.23e-01 93.1% 94.8%
165511 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.80 71.0 7.41e-01 97.5% 100.0%
4639740 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.80 69.0 7.10e-01 95.0% 94.1%
4612839 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.80 69.0 7.05e-01 95.0% 92.9%
3935434 2484.5.1.2 mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.79 56.0 6.25e-01 76.1% 88.5%
3370997 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.79 66.0 6.98e-01 89.9% 97.2%
3482477 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.78 67.0 6.94e-01 89.9% 98.0%
3736225 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.77 66.0 6.90e-01 89.3% 100.0%
3454260 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.76 68.0 7.00e-01 100.0% 98.0%
4270370 2484.1.1.4 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.76 73.0 7.11e-01 100.0% 98.2%
3457520 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.75 70.0 6.68e-01 97.5% 96.7%
3940112 2484.5.1.0 mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase 0.74 54.0 6.14e-01 81.1% 100.0%
3601539 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.71 66.0 5.77e-01 98.7% 96.1%
3937352 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.70 50.0 5.74e-01 72.3% 100.0%
3605420 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.70 65.0 5.50e-01 98.7% 96.8%
3439529 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.69 63.0 6.29e-01 99.4% 93.3%
3824506 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.69 63.0 6.25e-01 98.7% 93.3%
3177789 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.68 62.0 6.12e-01 100.0% 90.0%
4990857 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.67 58.0 4.74e-01 93.1% 90.5%
4978131 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.67 55.0 4.57e-01 87.4% 93.1%
5026243 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.66 58.0 4.70e-01 94.3% 87.1%
4022865 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.65 56.0 4.86e-01 90.6% 97.9%
3603327 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.65 56.0 4.20e-01 93.7% 86.5%
4669171 2484.1.1.114 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Med13_C 0.64 54.0 4.59e-01 89.9% 82.2%
5030890 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 58.0 5.21e-01 98.7% 97.3%
3733008 2484.1.1.114 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Med13_C 0.63 54.0 4.29e-01 91.8% 72.5%
4457711 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.62 58.0 5.35e-01 97.5% 89.2%
4498611 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.62 54.0 5.03e-01 89.9% 88.4%
5011583 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.62 53.0 4.97e-01 89.9% 87.4%
5043517 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.60 48.0 4.57e-01 84.9% 84.7%
5037605 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.59 54.0 4.99e-01 96.2% 87.7%
3588666 7579.1.1.89 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › COesterase, BD-FAE 0.58 45.0 3.55e-01 80.5% 71.8%
2048184 2002.1.1.188 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_106 0.58 32.0 3.83e-01 73.6% 80.0%
5063764 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.57 47.0 4.49e-01 86.8% 88.1%
3892882 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 32.0 3.16e-01 76.7% 54.1%
3731515 301.1.1.0 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like 0.52 35.0 4.03e-01 95.6% 97.3%
3175231 2003.1.6.6 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Tubulin nucleotide-binding domain-like › Misat_Tub_SegII+Tubulin_3 0.51 39.0 3.27e-01 79.9% 93.6%
4638438 2484.1.1.25 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.51 41.0 4.17e-01 86.8% 88.7%