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SRR1747065_scaffold_28_prodigal-single.1__X__X__00081

Bact-Vir

SRR1747065_scaffold_28_prodigal-single.1__X__X__00081

Identity

Kingdom:
phage

Quality

80.0 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 4-99
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l42A00 3.40.50.10190 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › BRCT domain 0.62 36.0 3.61e-01 75.0% 54.6%
4y9dA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.61 49.0 3.71e-01 97.9% 35.7%
2fgyA03 3.30.1330.140 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Carboxysome Shell Carbonic Anhydrase, C-terminal domain 0.61 46.0 4.31e-01 82.3% 65.8%
3vqjA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.61 47.0 3.71e-01 85.4% 62.9%
4m88A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.59 41.0 3.17e-01 81.2% 32.5%
1jndA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.58 48.0 3.52e-01 95.8% 74.8%
4gnrA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.58 41.0 3.21e-01 80.2% 34.8%
2qjtB01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.58 45.0 3.59e-01 100.0% 40.8%
4o1jA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.58 47.0 3.71e-01 88.5% 58.4%
4n03A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.58 41.0 3.20e-01 74.0% 36.6%
1cydA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.57 51.0 3.80e-01 99.0% 46.7%
1usgA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.57 39.0 3.14e-01 81.2% 34.3%
1yxmC00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.57 51.0 3.71e-01 100.0% 38.3%
1f6bB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 50.0 4.11e-01 100.0% 75.0%
3cniA00 3.40.1710.10 Alpha Beta › 3-Layer(aba) Sandwich › abc type-2 transporter like fold › abc type-2 transporter like domain 0.56 42.0 3.71e-01 80.2% 88.3%
1f0iA01 3.30.870.10 Alpha Beta › 2-Layer Sandwich › Endonuclease; Chain A › Endonuclease Chain A 0.56 49.0 3.83e-01 99.0% 69.2%
1dp4A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 42.0 3.25e-01 81.2% 35.8%
8gjaD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 46.0 3.37e-01 92.7% 49.6%
1ekjA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.55 43.0 3.39e-01 85.4% 56.2%
3s8mA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 46.0 3.22e-01 100.0% 64.1%
1ym3A00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.55 46.0 3.70e-01 93.8% 60.6%
4dyvA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 47.0 3.75e-01 100.0% 80.8%
6j4nC01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.54 47.0 3.32e-01 100.0% 67.4%
3bf0C03 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.54 48.0 4.04e-01 100.0% 92.2%
2cunA01 3.40.50.1260 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate kinase, N-terminal domain 0.54 47.0 3.77e-01 100.0% 49.0%
2xi5A00 3.40.91.60 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.54 45.0 3.73e-01 94.8% 50.5%
5zyuA01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 38.0 3.09e-01 76.0% 47.3%
4ms4B01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.53 43.0 3.31e-01 88.5% 81.6%
4ng4B01 3.40.50.1260 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate kinase, N-terminal domain 0.53 46.0 3.84e-01 99.0% 73.1%
1ayeA02 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.53 46.0 3.33e-01 100.0% 91.4%
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.53 38.0 3.72e-01 74.0% 83.3%
2ac2A01 3.40.50.1400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 43.0 3.62e-01 89.6% 80.1%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 40.0 3.06e-01 95.8% 34.8%
2vhaA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.53 35.0 2.90e-01 70.8% 36.7%
6oibA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 44.0 3.85e-01 94.8% 82.1%
8hi4A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 44.0 3.36e-01 97.9% 81.3%
2yutA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 44.0 3.58e-01 100.0% 67.2%
2qwvA00 3.40.1280.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha/beta knot › SPOUT methyltransferase, trefoil knot domain 0.51 41.0 3.27e-01 85.4% 63.3%
3lzdA02 3.40.50.11850 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Diphthamide synthesis DPH1/DPH2 domain 2 0.51 34.0 3.33e-01 99.0% 60.6%
3qmjA00 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.51 44.0 3.50e-01 99.0% 89.1%
3gl5A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 40.0 3.10e-01 84.4% 54.5%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.51 43.0 3.90e-01 100.0% 68.9%
3fg9C01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.51 44.0 3.91e-01 100.0% 67.1%
3qkwB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.50 42.0 3.46e-01 91.7% 100.0%
2qbuA01 3.40.1010.10 Alpha Beta › 3-Layer(aba) Sandwich › Cobalt-precorrin-4 Transmethylase; domain 1 › Tetrapyrrole methylase, N-terminal domain 0.50 38.0 3.44e-01 99.0% 59.1%
2gm3A00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.50 40.0 3.48e-01 94.8% 54.9%
1e4eA03 3.40.50.20 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 42.0 3.89e-01 90.6% 74.2%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3971108 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.71 49.0 5.03e-01 70.8% 98.9%
5047832 4126.1.1.0 ↗ a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase 0.65 44.0 4.03e-01 96.9% 51.5%
5063290 2002.1.1.83 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_1 0.64 57.0 4.02e-01 100.0% 82.6%
3732157 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.62 54.0 3.81e-01 95.8% 72.2%
3307157 1.1.9.8 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › YTH 0.61 42.0 4.26e-01 72.9% 77.6%
4350516 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 41.0 4.04e-01 71.9% 83.5%
4223379 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 41.0 3.92e-01 72.9% 80.0%
3343380 2002.1.1.19 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_17 0.59 46.0 3.54e-01 85.4% 62.7%
4037784 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.58 41.0 3.70e-01 71.9% 80.8%
4651783 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.58 40.0 3.60e-01 70.8% 70.7%
3193950 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.58 44.0 3.72e-01 94.8% 47.9%
5035101 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.57 49.0 3.69e-01 93.8% 48.1%
5006636 2007.1.2.13 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_6 0.57 41.0 3.10e-01 81.2% 30.6%
3290664 2007.1.2.13 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_6 0.57 40.0 3.16e-01 84.4% 34.1%
4968042 131.1.1.40 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD-CE 0.57 45.0 3.26e-01 86.5% 78.9%
4060516 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.57 40.0 3.81e-01 72.9% 80.9%
4252439 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.56 39.0 3.75e-01 71.9% 82.3%
5055315 7523.1.1.22 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › ABC2_membrane_3 0.56 40.0 3.75e-01 81.2% 59.2%
4666672 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.56 39.0 3.67e-01 70.8% 80.9%
4076693 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.56 40.0 3.77e-01 72.9% 75.7%
3725556 2006.1.1.14 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD 0.56 46.0 3.43e-01 91.7% 87.5%
4332382 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.56 39.0 3.71e-01 72.9% 74.8%
4223955 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.56 39.0 3.66e-01 71.9% 78.3%
3703702 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.56 40.0 3.49e-01 88.5% 47.7%
2458043 2006.1.6.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Ssl1 0.55 50.0 3.78e-01 97.9% 48.0%
3249751 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.55 46.0 3.37e-01 91.7% 40.4%
5037796 4143.1.1.0 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like 0.55 31.0 3.31e-01 97.9% 61.2%
4251513 2008.1.1.156 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF29906 0.55 42.0 3.53e-01 100.0% 46.5%
3602940 2486.1.1.14 ↗ a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › CLP_protease, Peptidase_S49 0.55 46.0 3.50e-01 93.8% 96.6%
4315832 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.55 38.0 3.61e-01 71.9% 77.4%
4943737 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 38.0 3.26e-01 74.0% 62.5%
4876381 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.54 39.0 3.41e-01 76.0% 62.1%
3400669 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.54 47.0 3.34e-01 100.0% 67.5%
3649846 2007.1.6.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Aminoacid dehydrogenase-like, N-terminal domain › malic 0.54 46.0 3.24e-01 95.8% 48.1%
2439587 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.54 42.0 3.23e-01 85.4% 78.5%
4002275 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.54 47.0 3.13e-01 100.0% 32.9%
3724474 207.1.1.85 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › F-box-like 0.54 46.0 2.98e-01 96.9% 40.2%
5044499 2006.1.4.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › NYN 0.53 42.0 3.51e-01 100.0% 46.5%
3937265 7590.1.1.6 ↗ a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › ArgoMid 0.53 43.0 3.62e-01 100.0% 50.6%
3629424 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.53 47.0 3.58e-01 96.9% 51.8%
3574113 2006.1.6.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.53 46.0 4.11e-01 95.8% 80.7%
4189444 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.53 37.0 3.49e-01 72.9% 75.8%
4403112 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.53 37.0 3.48e-01 74.0% 73.2%
4944368 2008.1.1.11 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.52 43.0 3.75e-01 91.7% 80.6%
5025002 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.52 43.0 3.33e-01 92.7% 51.5%
5018598 2006.1.6.12 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_2 0.52 46.0 3.63e-01 100.0% 67.6%
3584655 7566.1.1.2 ↗ a/b three-layered sandwiches › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › GTP-bdg_N 0.52 42.0 3.33e-01 97.9% 41.0%
None — 0.52 45.0 3.27e-01 99.0% 67.3%
4290285 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.51 40.0 3.04e-01 85.4% 80.4%
4417234 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.51 43.0 3.36e-01 95.8% 67.4%
3457573 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.51 44.0 3.23e-01 99.0% 67.3%
4171287 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.51 44.0 3.41e-01 99.0% 73.7%
137824 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.51 41.0 3.36e-01 91.7% 94.4%
1406486 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.51 43.0 3.90e-01 100.0% 68.9%
4153370 7512.1.1.19 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › NodZ 0.51 40.0 3.41e-01 88.5% 64.1%
1560740 2008.1.1.65 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › L_protein_N 0.51 42.0 3.17e-01 95.8% 34.8%
5000157 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.50 38.0 3.07e-01 85.4% 39.5%
5041491 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.50 39.0 3.44e-01 99.0% 53.5%
3425498 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.50 41.0 3.54e-01 90.6% 96.1%