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ALT_07252016_14_scaffold_0_prodigal-single.1__X__X__00082

Bact-Vir

ALT_07252016_14_scaffold_0_prodigal-single.1__X__X__00082

Identity

Kingdom:
phage

Quality

87.5 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 medium residues 86-119_159-179
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4bojA00 1.50.10.20 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.60 44.0 2.76e-01 80.0% 48.8%
1wraA01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.52 45.0 2.84e-01 100.0% 38.7%
4ht4A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.52 44.0 3.14e-01 100.0% 97.9%
1u97A00 1.10.287.1130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › CytochromE C oxidase copper chaperone 0.50 37.0 3.43e-01 81.8% 62.3%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3333370 109.4.1.420 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.65 51.0 3.33e-01 85.5% 39.6%
D2 medium residues 120-158_180-284
PDB
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4cd8A00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.72 67.0 5.13e-01 100.0% 51.4%
2pe4A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.64 59.0 4.18e-01 100.0% 40.0%
2ckrA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.61 56.0 4.38e-01 100.0% 49.2%
3cypB00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.60 37.0 3.88e-01 85.4% 66.7%
1hjrA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 37.0 3.64e-01 93.1% 54.4%
3cqjA00 3.20.20.150 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes 0.60 56.0 4.45e-01 100.0% 55.1%
4iqyB00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.59 53.0 4.66e-01 100.0% 96.8%
5z2xA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.59 48.0 3.66e-01 87.5% 77.2%
4d86A01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.59 49.0 4.55e-01 91.7% 87.8%
3q71A00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.57 49.0 4.37e-01 92.4% 80.3%
1yd9B00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.57 47.0 4.38e-01 91.0% 86.1%
5kivA01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.57 48.0 4.44e-01 93.1% 88.4%
5fszA00 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.56 52.0 4.32e-01 100.0% 83.7%
3dnfA03 3.40.1010.20 Alpha Beta › 3-Layer(aba) Sandwich › Cobalt-precorrin-4 Transmethylase; domain 1 › 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, catalytic domain 0.56 33.0 3.94e-01 89.6% 84.8%
4cemA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.56 45.0 3.59e-01 86.8% 71.0%
5wtpA00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.56 38.0 4.09e-01 95.1% 80.6%
7toiA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.55 48.0 4.29e-01 98.6% 84.2%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.55 38.0 3.99e-01 92.4% 77.3%
3kzwA01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.55 45.0 4.41e-01 88.9% 93.7%
3dwgA01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 36.0 3.35e-01 95.8% 51.8%
4h08A00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.54 47.0 4.29e-01 97.9% 76.5%
4cyfA01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.53 46.0 3.63e-01 92.4% 51.5%
2hoeA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 4.42e-01 88.9% 99.3%
1b5tA00 3.20.20.220 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.53 48.0 3.91e-01 100.0% 56.7%
3fnbA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.53 36.0 3.94e-01 81.9% 86.8%
6acsA00 3.40.1180.10 Alpha Beta › 3-Layer(aba) Sandwich › Undecaprenyl pyrophosphate synthetase › Decaprenyl diphosphate synthase-like 0.53 44.0 3.81e-01 96.5% 57.8%
6imeA01 3.40.1180.10 Alpha Beta › 3-Layer(aba) Sandwich › Undecaprenyl pyrophosphate synthetase › Decaprenyl diphosphate synthase-like 0.52 47.0 3.86e-01 99.3% 56.0%
1xpjA00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.52 33.0 3.50e-01 87.5% 71.0%
3htvA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 44.0 4.23e-01 91.7% 84.5%
2rbgA00 3.40.50.11100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 34.0 3.66e-01 90.3% 76.6%
7whfC02 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.52 32.0 3.70e-01 84.0% 87.0%
4e19A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.51 38.0 4.00e-01 86.1% 84.2%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 41.0 4.07e-01 88.9% 93.5%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4976113 2002.1.1.57 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › URO-D 0.75 70.0 5.20e-01 100.0% 58.6%
3982647 2002.1.2.16 a/b barrels › TIM beta/alpha-barrel › TIM barrels › Hypothetical protein Cthe_0052 › DUF4434 0.71 66.0 6.14e-01 97.9% 88.0%
4263381 2002.1.1.60 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › AP_endonuc_2 0.63 59.0 4.55e-01 100.0% 51.7%
4928384 2002.1.1.101 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Orn_Arg_deC_N 0.62 52.0 3.89e-01 97.2% 36.2%
4886896 301.3.1.1 a+b three layers › Bacillus chorismate mutase-like › OmpA-like › OmpA-like › OmpA 0.61 38.0 4.11e-01 86.8% 73.9%
3511706 4143.1.1.1 a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › THUMP 0.60 33.0 3.85e-01 82.6% 75.0%
3215838 2002.1.1.101 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Orn_Arg_deC_N 0.60 52.0 4.36e-01 95.8% 56.2%
4057121 2484.1.1.8 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.60 37.0 3.98e-01 89.6% 71.2%
3271830 7590.1.1.7 a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › MID_MedPIWI 0.59 50.0 4.46e-01 91.7% 82.0%
3604826 7510.1.1.0 a/b three-layered sandwiches › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like 0.58 45.0 4.21e-01 81.2% 71.4%
4014216 4121.1.1.0 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.57 41.0 3.11e-01 74.3% 85.8%
1734609 2003.1.1.20 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Epimerase 0.56 37.0 4.05e-01 94.4% 81.2%
3836729 7589.1.1.2 a/b three-layered sandwiches › YgbK-like › YgbK-like › YgbK-like › NBD_C 0.55 46.0 4.19e-01 89.6% 89.2%
3268141 2487.1.1.0 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" 0.55 33.0 3.30e-01 87.5% 54.2%
2171605 7529.1.1.1 a/b three-layered sandwiches › Macro domain-like › Macro domain-like › Macro domain-like › Macro 0.54 47.0 4.29e-01 96.5% 95.5%
5055459 2484.1.1.8 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.54 46.0 4.18e-01 93.8% 82.6%
3806227 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.53 40.0 3.91e-01 88.2% 71.2%
3830251 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.53 41.0 3.92e-01 93.8% 68.8%
3302604 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.53 39.0 3.75e-01 87.5% 65.3%
3366576 2003.1.6.6 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Tubulin nucleotide-binding domain-like › Misat_Tub_SegII+Tubulin_3 0.53 47.0 3.77e-01 97.2% 87.5%
4944797 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.51 44.0 3.34e-01 94.4% 60.6%
D3 medium residues 285-459
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4cd8A00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.78 56.0 4.50e-01 100.0% 40.9%
5z1aA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.65 51.0 4.16e-01 100.0% 45.8%
6d6wA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.65 48.0 3.96e-01 100.0% 43.9%
7jt8I02 3.90.190.20 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Mur ligase, C-terminal domain 0.64 37.0 4.09e-01 98.9% 68.1%
6ecaA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.63 41.0 3.32e-01 98.9% 35.4%
7wmzC01 3.20.20.220 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.58 42.0 3.55e-01 99.4% 45.2%
6mp7A01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.58 52.0 4.14e-01 99.4% 50.0%
3s6dA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.57 43.0 3.74e-01 100.0% 50.7%
2hsjD00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.56 42.0 3.91e-01 100.0% 62.6%
1jphA00 3.20.20.210 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.56 52.0 4.07e-01 100.0% 57.4%
1r1rA02 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.56 47.0 3.45e-01 99.4% 31.8%
4f8xA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 47.0 3.79e-01 100.0% 50.1%
1ur1A00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.52 48.0 3.83e-01 100.0% 53.5%
3hpxA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 41.0 3.47e-01 98.9% 50.3%
1yhtA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 44.0 3.53e-01 98.9% 47.4%
1t7lA02 3.20.20.210 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.50 45.0 3.61e-01 98.9% 48.7%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2388498 2002.1.1.196 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › GH113 0.80 57.0 4.59e-01 99.4% 40.8%
168778 2002.1.1.196 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › GH113 0.77 56.0 4.50e-01 100.0% 40.8%
2431006 2002.1.1.104 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_2_C 0.66 50.0 4.05e-01 100.0% 43.1%
5005228 2002.1.1.58 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_39 0.65 53.0 4.19e-01 100.0% 43.2%
2389924 2002.1.1.104 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_2_C 0.64 48.0 3.80e-01 100.0% 39.4%
4584853 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.64 33.0 3.67e-01 97.1% 61.5%
4938216 2002.1.1.12 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_1 0.64 49.0 3.76e-01 100.0% 37.3%
3789664 2496.1.1.0 a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like 0.58 41.0 3.96e-01 98.9% 63.6%
4165319 2002.1.1.104 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_2_C 0.57 49.0 3.94e-01 99.4% 48.3%
4056199 7516.1.1.10 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › CofC 0.57 32.0 2.97e-01 89.7% 40.2%
3487085 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.57 40.0 4.21e-01 98.9% 81.0%
4419527 2002.1.1.83 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_1 0.57 35.0 2.86e-01 98.9% 31.7%
3942765 2500.1.1.2 a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC 0.56 47.0 3.42e-01 99.4% 30.4%
5010989 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 40.0 4.14e-01 96.6% 78.2%
4015532 2500.1.1.0 a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel 0.53 48.0 3.37e-01 100.0% 45.0%
3706151 7579.1.1.51 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF676 0.52 47.0 3.81e-01 98.3% 81.4%
4876279 7579.1.1.46 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Chlorophyllase2 0.52 43.0 3.90e-01 99.4% 64.4%
3644156 2004.1.1.98 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad17 0.52 38.0 3.63e-01 98.9% 63.8%
3717025 7529.1.1.0 a/b three-layered sandwiches › Macro domain-like › Macro domain-like › Macro domain-like 0.51 41.0 3.90e-01 98.9% 71.7%