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S2_012_000_R2_scaffold_0_prodigal-single.1__X__X__00870

Bact-Vir

S2_012_000_R2_scaffold_0_prodigal-single.1__X__X__00870

Identity

Kingdom:
phage

Quality

62.2 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 11-95
PDB
D2 high residues 118-242
PDB
D3 high residues 244-314
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5dkaA00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.75 38.0 3.44e-01 97.2% 36.5%
2ia0B02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.72 61.0 5.49e-01 94.4% 75.8%
2av5A00 3.30.70.3250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribonuclease P, Pop5 subunit 0.71 62.0 5.39e-01 94.4% 81.1%
4cllA01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.70 58.0 4.20e-01 93.0% 61.0%
2p5vA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.70 60.0 5.72e-01 95.8% 89.3%
6ahuH01 3.30.70.3250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribonuclease P, Pop5 subunit 0.70 59.0 5.36e-01 93.0% 91.6%
1apsA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 59.0 5.32e-01 95.8% 79.6%
4pcqA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.67 57.0 5.47e-01 95.8% 89.3%
2cveA02 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 57.0 5.89e-01 94.4% 100.0%
3e8oB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 54.0 4.84e-01 91.5% 88.0%
3gp9A00 3.30.70.141 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleoside diphosphate kinase-like domain 0.66 55.0 4.57e-01 95.8% 87.2%
2v4jB01 3.30.70.3340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 56.0 4.60e-01 95.8% 56.1%
2pgcC01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 54.0 4.96e-01 94.4% 95.9%
4hl9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 53.0 4.87e-01 91.5% 93.6%
2i8eA01 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 54.0 5.37e-01 93.0% 97.3%
6k2eA01 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 53.0 5.39e-01 97.2% 95.6%
1e6vC00 3.90.320.20 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › Methyl-coenzyme M reductase, gamma subunit 0.64 57.0 3.90e-01 100.0% 41.1%
1rtzA00 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.64 52.0 4.14e-01 93.0% 61.2%
2gffA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 52.0 4.73e-01 91.5% 90.6%
1gmuA01 3.30.70.790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › UreE, C-terminal domain 0.63 47.0 4.87e-01 90.1% 85.1%
1b3tA00 3.30.70.390 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Epstein Barr virus nuclear antigen-1, DNA-binding domain 0.63 52.0 4.26e-01 97.2% 70.7%
2diuA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.62 52.0 5.19e-01 94.4% 100.0%
3qfhA01 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.62 48.0 4.99e-01 97.2% 92.3%
6lpnA04 3.30.70.2740 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 52.0 4.73e-01 93.0% 90.5%
2jgbA01 3.30.760.10 Alpha Beta › 2-Layer Sandwich › RNA Cap, Translation Initiation Factor Eif4e › RNA Cap, Translation Initiation Factor Eif4e 0.62 50.0 3.87e-01 93.0% 48.6%
1earA02 3.30.70.790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › UreE, C-terminal domain 0.62 46.0 4.73e-01 90.1% 82.6%
1rzmA01 3.30.70.1140 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phospho-2-dehydro-3-deoxyheptonate aldolase; domain 1 0.61 50.0 4.80e-01 88.7% 78.8%
2bj3D02 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.61 54.0 5.20e-01 100.0% 92.6%
3tj8A02 3.30.70.790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › UreE, C-terminal domain 0.60 46.0 4.60e-01 90.1% 79.7%
5v7qZ00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.60 44.0 4.71e-01 91.5% 94.9%
1weyA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.60 53.0 4.68e-01 100.0% 76.9%
1a7gE00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 48.0 4.68e-01 93.0% 95.1%
1nm2A01 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.59 46.0 4.74e-01 97.2% 89.7%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.59 47.0 4.39e-01 93.0% 85.1%
1tuwA00 3.30.70.1090 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel. 0.58 47.0 4.23e-01 93.0% 91.5%
6spbZ00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.58 42.0 4.58e-01 91.5% 98.2%
1konA03 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.57 45.0 4.48e-01 95.8% 81.3%
3tzyA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.57 46.0 4.70e-01 98.6% 92.9%
4mz0B05 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.57 44.0 4.49e-01 93.0% 88.1%
2go9A02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.55 44.0 4.29e-01 93.0% 94.0%
1fx7B03 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.55 45.0 4.35e-01 90.1% 80.0%
4rdlA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.54 38.0 3.39e-01 74.6% 83.2%
2hg4D03 3.40.366.10 Alpha Beta › 3-Layer(aba) Sandwich › Malonyl-Coenzyme A Acyl Carrier Protein; domain 2 › Malonyl-Coenzyme A Acyl Carrier Protein, domain 2 0.54 42.0 2.82e-01 95.8% 20.2%
3uxfA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 47.0 3.80e-01 100.0% 93.7%
3tmaA01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.54 40.0 3.27e-01 90.1% 39.4%
2n3lA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 44.0 4.20e-01 98.6% 92.1%
2f3jA02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 44.0 4.04e-01 100.0% 90.8%
2kviA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 42.0 4.15e-01 93.0% 93.5%
7rd0A01 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.51 43.0 3.45e-01 100.0% 50.3%
4dzdA01 3.30.70.1200 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 1 0.51 41.0 4.16e-01 90.1% 94.3%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5049794 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.74 50.0 3.91e-01 97.2% 34.5%
5042122 304.48.1.31 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Cas10-Cmr2_palm2 0.73 65.0 3.87e-01 98.6% 28.6%
4976045 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.73 64.0 5.42e-01 94.4% 80.0%
4151900 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.72 49.0 3.86e-01 98.6% 34.7%
5035005 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.71 63.0 5.44e-01 94.4% 82.7%
4979507 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.71 47.0 3.67e-01 95.8% 32.9%
4974602 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.70 61.0 5.20e-01 94.4% 76.4%
4065065 304.8.1.24 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › DUF2129 0.70 57.0 5.75e-01 97.2% 88.6%
4934750 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.69 62.0 5.27e-01 97.2% 79.1%
5025261 304.57.1.0 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like 0.68 55.0 5.19e-01 95.8% 71.8%
4857408 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.68 53.0 5.25e-01 91.5% 81.3%
4611550 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.67 59.0 5.29e-01 100.0% 70.0%
4935242 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.67 62.0 5.36e-01 100.0% 83.8%
5050437 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.67 55.0 5.72e-01 94.4% 98.5%
5039174 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.66 50.0 5.32e-01 93.0% 96.7%
4941427 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.66 60.0 5.25e-01 100.0% 83.8%
4321822 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.65 51.0 4.94e-01 91.5% 77.5%
4945067 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.64 53.0 4.96e-01 97.2% 74.4%
4179584 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.64 52.0 4.93e-01 97.2% 74.4%
5008578 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.63 52.0 4.87e-01 97.2% 74.4%
4200378 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.63 51.0 5.03e-01 91.5% 98.7%
3709243 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 54.0 4.73e-01 95.8% 68.6%
4127496 304.22.1.1 ↗ a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain › UreE_C 0.62 46.0 4.60e-01 90.1% 76.0%
4889364 304.56.1.3 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › Cas3_I-F_Cas2 0.62 49.0 4.19e-01 91.5% 52.1%
4025585 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.62 55.0 4.84e-01 100.0% 74.3%
4026322 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.62 55.0 4.27e-01 100.0% 50.3%
5027466 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.61 49.0 5.13e-01 91.5% 98.5%
5082240 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.61 50.0 4.81e-01 98.6% 80.0%
2507517 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.61 51.0 4.86e-01 94.4% 89.2%
4968901 304.22.1.0 ↗ a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain 0.60 48.0 4.96e-01 93.0% 96.9%
3931138 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 51.0 3.55e-01 97.2% 50.8%
3319790 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 48.0 4.43e-01 93.0% 78.9%
3775881 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.59 51.0 4.98e-01 100.0% 87.5%
3864058 4323.1.1.1 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.59 51.0 4.40e-01 100.0% 60.9%
3555679 304.126.1.1 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.59 51.0 4.69e-01 100.0% 73.7%
2985023 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.58 47.0 4.52e-01 100.0% 76.8%
3190884 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.58 51.0 3.09e-01 98.6% 18.9%
4029268 304.9.1.65 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_ESF1 0.58 46.0 3.85e-01 91.5% 81.2%
3263724 887.1.1.1 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30 0.58 45.0 4.39e-01 98.6% 77.2%
3373326 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.57 48.0 4.56e-01 95.8% 96.5%
3463679 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.57 47.0 4.55e-01 97.2% 100.0%
3432849 304.9.1.85 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF28947 0.57 46.0 4.04e-01 93.0% 70.9%
3509263 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.56 44.0 4.55e-01 88.7% 100.0%
3867832 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.55 46.0 4.41e-01 100.0% 94.4%
3650792 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 44.0 4.40e-01 93.0% 98.7%
3257902 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.54 46.0 4.35e-01 98.6% 90.0%
3428854 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.54 45.0 4.33e-01 98.6% 90.6%
5015916 2002.1.1.459 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › PF26257 0.54 43.0 2.86e-01 94.4% 23.1%
3284295 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 37.0 2.58e-01 74.6% 89.1%
3449987 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.53 44.0 4.43e-01 97.2% 98.7%
3400762 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 46.0 4.39e-01 100.0% 89.4%
4566378 887.1.1.1 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30 0.50 43.0 3.04e-01 98.6% 64.9%