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js4906-29-5_S40_scaffold_9_prodigal-single.1__X__X__00039

Bact-Vir

js4906-29-5_S40_scaffold_9_prodigal-single.1__X__X__00039

Identity

Kingdom:
phage

Quality

69.7 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 97-253
PDB
Domain cluster: representative
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gefA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.68 37.0 4.21e-01 93.0% 68.3%
1ob8A00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.68 38.0 4.30e-01 92.4% 70.6%
7mi4A01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.67 49.0 4.59e-01 98.7% 60.5%
3u4qA06 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.67 46.0 4.08e-01 78.3% 49.1%
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.66 39.0 4.71e-01 87.3% 90.2%
1w36B05 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.65 57.0 4.59e-01 91.7% 72.7%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.64 33.0 4.19e-01 90.4% 83.5%
2eo0B00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.64 35.0 3.89e-01 95.5% 66.1%
5zyuA01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.64 47.0 4.32e-01 96.8% 59.2%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.62 50.0 4.50e-01 100.0% 62.1%
1y88A01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.61 39.0 4.40e-01 75.8% 81.6%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.60 48.0 4.37e-01 100.0% 64.6%
3npdA00 3.30.300.250 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.57 37.0 4.31e-01 84.7% 91.2%
6p4wB01 3.40.91.30 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.57 35.0 4.12e-01 76.4% 88.1%
1xmxA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.55 39.0 4.01e-01 73.2% 75.2%
1rznA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.55 37.0 3.84e-01 96.2% 72.0%
3sm4A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.54 43.0 3.84e-01 84.1% 80.0%
2xi5A00 3.40.91.60 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.54 35.0 3.36e-01 79.0% 56.0%
3r3pB00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.53 30.0 3.66e-01 80.3% 86.7%
4l4qA02 3.30.300.340 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › S-adenosylmethionine synthetase, N-terminal domain 0.53 35.0 3.89e-01 75.8% 83.5%
4kreA04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 40.0 3.41e-01 79.6% 72.0%
ECOD (79)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4060254 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.75 48.0 4.08e-01 79.0% 40.4%
None — 0.74 47.0 2.76e-01 78.3% 8.3%
4490768 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.72 45.0 2.67e-01 77.1% 8.1%
4096358 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.72 45.0 4.15e-01 77.7% 49.0%
4310493 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 47.0 3.98e-01 77.7% 42.0%
4387318 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.71 44.0 3.81e-01 78.3% 40.9%
4047845 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.70 46.0 3.99e-01 77.1% 43.3%
4477991 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.70 47.0 4.01e-01 77.7% 43.3%
3588071 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.70 52.0 5.20e-01 96.2% 75.0%
4467601 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.70 47.0 3.95e-01 79.0% 41.2%
4497527 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.70 47.0 4.01e-01 78.3% 43.6%
4943737 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.70 51.0 5.12e-01 95.5% 73.8%
4501322 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.70 54.0 4.72e-01 96.8% 54.8%
5057713 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.70 41.0 4.58e-01 79.0% 71.9%
4101307 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 48.0 2.78e-01 79.0% 8.7%
4389411 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.70 47.0 3.94e-01 78.3% 41.1%
4641844 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 47.0 2.76e-01 79.0% 8.6%
5045797 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.70 51.0 4.77e-01 100.0% 62.1%
5076295 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.68 44.0 4.79e-01 79.0% 76.3%
4411889 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 42.0 3.69e-01 77.7% 43.2%
4983302 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 42.0 4.46e-01 79.0% 69.3%
4947569 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 43.0 4.41e-01 79.0% 65.2%
4457776 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.68 47.0 3.90e-01 77.7% 42.3%
4076693 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.68 41.0 4.66e-01 79.0% 80.9%
4058806 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.67 48.0 3.91e-01 79.6% 40.5%
4626907 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.67 47.0 3.96e-01 79.0% 43.2%
1305832 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.67 46.0 3.73e-01 78.3% 37.9%
4607429 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.67 47.0 3.95e-01 79.0% 43.5%
4209016 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.67 42.0 3.65e-01 77.7% 42.6%
4426454 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.66 47.0 2.78e-01 79.0% 9.3%
5080245 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.66 52.0 4.90e-01 100.0% 68.4%
5016554 2008.1.1.51 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › McrBC 0.66 44.0 4.55e-01 88.5% 70.7%
4332382 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.65 40.0 4.53e-01 90.4% 79.8%
4670340 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.65 41.0 4.77e-01 87.9% 87.7%
4991917 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.65 41.0 4.37e-01 76.4% 71.4%
4403112 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.64 41.0 4.51e-01 89.8% 79.7%
4261280 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.64 40.0 4.49e-01 87.9% 80.0%
3166039 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.64 56.0 4.51e-01 93.0% 53.2%
4876381 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.64 47.0 4.79e-01 96.8% 77.8%
4239378 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.64 41.0 4.50e-01 89.2% 80.5%
4066769 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.63 39.0 4.54e-01 79.0% 88.0%
5044163 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 37.0 4.24e-01 73.9% 77.5%
3838596 2008.1.1.85 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII 0.62 42.0 3.85e-01 80.9% 52.2%
4394279 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.62 40.0 4.47e-01 80.9% 84.2%
5011600 2008.1.1.108 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.62 37.0 4.39e-01 73.9% 85.5%
4945329 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.62 42.0 3.73e-01 79.0% 49.8%
4459358 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.61 39.0 4.42e-01 79.6% 83.3%
4060516 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.61 40.0 4.53e-01 88.5% 87.8%
4223379 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.61 39.0 4.46e-01 90.4% 86.1%
4533235 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.61 46.0 2.69e-01 77.7% 10.4%
3839413 2008.1.1.34 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Card1_endonuc 0.61 40.0 4.20e-01 79.6% 71.0%
4941691 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.61 45.0 4.55e-01 80.3% 76.6%
4412405 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.61 39.0 4.44e-01 77.7% 87.0%
4933915 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.60 47.0 4.72e-01 82.8% 80.0%
4968936 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.60 51.0 4.61e-01 100.0% 66.5%
4282858 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 46.0 2.68e-01 79.0% 13.2%
4651783 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 39.0 4.15e-01 78.3% 75.9%
4666672 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 38.0 4.28e-01 78.3% 86.1%
5079137 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.59 42.0 4.48e-01 73.9% 82.1%
4212352 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.59 44.0 3.67e-01 77.1% 59.6%
4960251 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.59 42.0 4.52e-01 80.3% 85.7%
4968040 2008.1.1.235 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF26618 0.58 41.0 4.45e-01 74.5% 86.2%
3976411 2008.1.1.58 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF3799 0.58 49.0 4.20e-01 100.0% 56.3%
5078940 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 40.0 4.12e-01 79.6% 72.3%
4468301 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.58 39.0 4.34e-01 87.9% 88.3%
4037784 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.58 40.0 4.37e-01 78.3% 85.4%
4998336 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.58 44.0 4.64e-01 87.9% 86.2%
4956304 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 45.0 4.13e-01 80.9% 63.5%
4975459 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 45.0 4.56e-01 80.9% 83.9%
5029815 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.57 50.0 4.50e-01 100.0% 69.3%
5073133 2008.1.1.16 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.57 44.0 4.51e-01 87.9% 83.3%
4986981 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.57 52.0 4.62e-01 100.0% 71.1%
4935732 2008.1.1.165 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_MjaI 0.56 35.0 4.04e-01 80.3% 86.4%
4979146 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.56 43.0 4.36e-01 80.9% 79.4%
4958249 2008.1.1.97 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Exo5 0.56 51.0 4.33e-01 100.0% 70.6%
4991400 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 40.0 3.77e-01 87.9% 62.1%
5077266 2008.1.1.108 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.54 38.0 4.10e-01 73.9% 85.4%
4084414 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.54 41.0 4.35e-01 87.9% 90.0%
3395104 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.51 37.0 3.98e-01 100.0% 84.3%
D2 high residues 293-364
PDB
D3 medium residues 1-92
PDB