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SRR1747055_scaffold_2_prodigal-single.1__X__X__00136

Bact-Vir

SRR1747055_scaffold_2_prodigal-single.1__X__X__00136

Identity

Kingdom:
phage

Quality

54.6 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 48-124
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4l1gA00 3.20.20.370 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycoside hydrolase/deacetylase 0.68 51.0 3.66e-01 79.2% 91.6%
4v19K02 1.10.10.250 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain 0.67 53.0 5.42e-01 85.7% 100.0%
7wboA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.67 47.0 3.56e-01 74.0% 34.4%
4h9nC00 1.20.58.2170 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 50.0 3.73e-01 83.1% 30.7%
2gfhA02 1.20.120.710 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain 0.64 47.0 4.57e-01 81.8% 69.8%
3ghyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.64 49.0 4.19e-01 83.1% 57.6%
2icwG02 1.10.10.530 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › mam-mhc complex, Chain D, Domain 2 0.63 48.0 4.59e-01 83.1% 70.8%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.63 48.0 4.54e-01 83.1% 69.1%
2bdtA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 46.0 3.58e-01 79.2% 82.5%
1dj2A02 1.10.300.10 Mainly Alpha › Orthogonal Bundle › Adenylosuccinate Synthetase, subunit A; domain 2 › Adenylosuccinate Synthetase, subunit A, domain 2 0.62 47.0 4.30e-01 80.5% 93.9%
1f5mA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.62 50.0 3.83e-01 88.3% 90.3%
4rrfA01 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.61 54.0 4.52e-01 100.0% 56.6%
2cfoA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 47.0 4.26e-01 83.1% 66.3%
3u4qB04 6.10.140.1030 Special › Helix non-globular › Helix Hairpins › 0.61 36.0 3.82e-01 87.0% 65.2%
3nlcA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.61 50.0 3.55e-01 90.9% 63.0%
2vliB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 46.0 3.52e-01 80.5% 87.3%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.60 50.0 4.01e-01 94.8% 71.2%
6a8mA01 3.40.350.10 Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain 0.60 46.0 3.57e-01 83.1% 91.2%
2jrmA00 1.10.10.620 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › ribosome modulation factor like domain 0.60 36.0 3.90e-01 84.4% 75.0%
5e5bA01 3.40.350.10 Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain 0.59 46.0 3.60e-01 84.4% 91.2%
3tl4X02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.59 46.0 4.79e-01 92.2% 93.1%
2w3sA05 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.59 45.0 4.09e-01 81.8% 86.5%
3p94A00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.58 52.0 3.85e-01 100.0% 53.9%
3pivA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.58 44.0 3.56e-01 83.1% 80.8%
3kizA01 3.30.1330.10 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › PurM-like, N-terminal domain 0.57 49.0 4.11e-01 98.7% 66.7%
2hszA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 44.0 4.45e-01 81.8% 84.0%
1u3dA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.57 48.0 3.78e-01 92.2% 51.6%
1irxA04 1.10.10.770 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.57 43.0 3.87e-01 81.8% 81.5%
2j0wA02 1.20.120.1320 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartokinase, catalytic domain 0.57 40.0 3.77e-01 72.7% 65.6%
3k8pC02 1.10.357.150 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.56 47.0 3.56e-01 93.5% 52.1%
1f5nA01 1.20.1000.10 Mainly Alpha › Up-down Bundle › Signaling Protein - Interferon-induced Guanylate-binding Protein 1; Chain A, domain 1 › Guanylate-binding protein, C-terminal domain 0.56 49.0 3.34e-01 98.7% 42.6%
1yzfA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.56 49.0 3.71e-01 100.0% 53.3%
3iieB03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 34.0 3.37e-01 74.0% 55.3%
4o5aA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 47.0 3.94e-01 96.1% 75.5%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.55 42.0 3.83e-01 84.4% 87.0%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.54 39.0 3.90e-01 75.3% 82.3%
2fe1A00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.54 45.0 3.79e-01 92.2% 76.2%
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.54 41.0 3.69e-01 84.4% 89.3%
3i8oA01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.53 47.0 3.96e-01 96.1% 72.7%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.53 40.0 3.64e-01 85.7% 87.2%
7shlA02 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.53 45.0 3.91e-01 94.8% 73.8%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.52 40.0 4.03e-01 84.4% 88.6%
1cnzA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.52 44.0 2.93e-01 100.0% 37.5%
2qm3A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 42.0 3.10e-01 93.5% 42.9%
5iz4A00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 43.0 3.11e-01 97.4% 48.2%
1yo7A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 39.0 3.39e-01 81.8% 88.3%
1vsgA02 1.10.470.10 Mainly Alpha › Orthogonal Bundle › Variant Surface Glycoprotein, subunit A; domain 2 › Variant Surface Glycoprotein, subunit A, domain 2 0.51 39.0 3.19e-01 85.7% 66.0%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 40.0 3.34e-01 89.6% 74.5%
1pyoC00 3.40.50.1460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 39.0 3.15e-01 89.6% 41.6%
1mw5A01 1.20.272.30 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.50 37.0 3.11e-01 81.8% 64.1%
2r18A02 1.10.8.880 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Birnavirus VP3 protein, domain 2 0.50 36.0 4.04e-01 96.1% 100.0%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4156726 101.11.1.1 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.76 58.0 5.46e-01 83.1% 77.9%
3576522 101.1.16.2 ↗ alpha arrays › HTH › HTH › Ribosomal protein L11, C-terminal domain › tRNA-synt_2c 0.71 50.0 4.91e-01 89.6% 68.2%
3952621 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.70 52.0 5.46e-01 83.1% 88.4%
3641274 2006.1.4.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.68 49.0 3.35e-01 76.6% 81.4%
3008422 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.67 47.0 4.43e-01 74.0% 66.7%
4523250 108.1.1.74 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_7+EF-hand_8 0.66 47.0 4.45e-01 74.0% 68.9%
4170809 108.1.1.73 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7 0.65 46.0 4.41e-01 74.0% 68.9%
3236773 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.65 48.0 4.00e-01 77.9% 81.5%
4576399 108.1.1.29 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_7 0.65 46.0 4.49e-01 74.0% 72.9%
3664835 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.65 47.0 4.07e-01 81.8% 48.0%
3315363 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.64 51.0 4.13e-01 89.6% 45.6%
5048002 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.64 49.0 4.13e-01 83.1% 62.2%
3413935 108.1.1.97 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_7 0.64 45.0 4.31e-01 74.0% 72.2%
3719467 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 47.0 4.64e-01 81.8% 85.9%
4277031 218.1.1.2 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.63 45.0 4.74e-01 85.7% 89.2%
4573573 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.62 38.0 3.64e-01 74.0% 52.2%
9768 2004.1.1.192 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_18 0.62 46.0 3.57e-01 79.2% 82.0%
3367703 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.62 47.0 4.05e-01 83.1% 94.4%
3369798 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.62 47.0 4.59e-01 83.1% 91.8%
3708255 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.61 43.0 4.40e-01 80.5% 76.0%
3334694 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.61 46.0 4.49e-01 81.8% 74.1%
3396456 592.2.1.2 ↗ alpha arrays › PWI domain-like › YugE-like › YugE-like › WGG 0.61 46.0 4.16e-01 83.1% 72.7%
4445621 2004.1.1.439 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PF26341 0.61 49.0 3.80e-01 87.0% 83.6%
4139831 314.1.1.12 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat 0.61 46.0 3.33e-01 81.8% 90.4%
3367461 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.59 45.0 3.91e-01 83.1% 94.4%
5071782 1075.1.1.67 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › 12TM_1 0.59 45.0 3.34e-01 84.4% 41.3%
3371197 207.1.1.214 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_8, LRR_RPS2, LRR_14 0.59 51.0 3.06e-01 100.0% 28.0%
3406437 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.59 45.0 4.22e-01 84.4% 94.0%
3619884 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.59 45.0 3.50e-01 84.4% 41.7%
3421325 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.58 43.0 4.30e-01 80.5% 97.5%
3843701 129.1.1.27 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › Speriolin_C 0.58 45.0 3.67e-01 94.8% 42.6%
4225323 109.4.1.862 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ZW10_C2 0.57 46.0 3.09e-01 89.6% 29.3%
5068596 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.57 50.0 3.61e-01 97.4% 65.8%
4317813 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.57 45.0 2.83e-01 89.6% 86.7%
4109098 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.57 35.0 3.33e-01 74.0% 50.0%
4682059 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.57 35.0 3.34e-01 74.0% 50.5%
3716219 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.56 43.0 3.82e-01 85.7% 70.8%
3807144 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.56 36.0 3.30e-01 80.5% 50.0%
4965156 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 42.0 3.62e-01 83.1% 52.3%
4080592 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.55 34.0 3.31e-01 74.0% 52.2%
5074917 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.55 43.0 2.89e-01 88.3% 26.4%
3218028 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.55 42.0 3.05e-01 84.4% 81.3%
3900805 108.1.1.29 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_7 0.54 38.0 3.70e-01 75.3% 69.3%
4569464 2004.1.1.79 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Thymidylate_kin 0.54 47.0 3.57e-01 100.0% 71.8%
3711337 632.24.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › GBS CAMP factor C-terminal domain › GBS CAMP factor C-terminal domain 0.53 36.0 3.85e-01 70.1% 84.6%
3963621 166.1.1.1 ↗ alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › DXPR_C 0.51 39.0 3.60e-01 83.1% 66.7%
5001990 4044.1.1.1 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Prismane 0.51 39.0 3.31e-01 81.8% 56.0%
D2 high residues 130-142_154-210
PDB