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SRR1747055_scaffold_2_prodigal-single.1__X__X__00026

Bact-Vir

SRR1747055_scaffold_2_prodigal-single.1__X__X__00026

Identity

Kingdom:
phage

Quality

76.3 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 3-63
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2oauA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.82 60.0 5.00e-01 77.0% 48.0%
3g3oA00 3.20.100.30 Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › VTC, catalytic tunnel domain 0.80 54.0 3.43e-01 73.8% 15.3%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.76 55.0 5.39e-01 77.0% 73.8%
6mh4A03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.74 65.0 5.95e-01 96.7% 75.9%
3nctA00 3.40.50.11880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Plasmid SOS inhibition protein 0.74 58.0 4.39e-01 83.6% 38.7%
4j0eA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.73 51.0 3.53e-01 73.8% 24.3%
3lupA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.73 57.0 4.17e-01 83.6% 46.5%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.73 62.0 5.87e-01 100.0% 92.1%
3dtoA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.71 58.0 5.24e-01 93.4% 67.0%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.71 61.0 5.42e-01 100.0% 93.4%
2jxuA00 1.10.3680.10 Mainly Alpha › Orthogonal Bundle › TerB-like › TerB-like 0.70 55.0 4.13e-01 90.2% 34.6%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.70 50.0 5.05e-01 82.0% 76.7%
5dckA00 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.70 48.0 4.63e-01 72.1% 63.4%
4didB01 1.20.58.450 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Cell division control protein 42 homolog 0.69 52.0 4.27e-01 82.0% 80.7%
2q0yA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.69 46.0 3.54e-01 70.5% 30.4%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.68 58.0 5.72e-01 98.4% 95.5%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.68 51.0 5.15e-01 90.2% 81.0%
1h3lB00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.68 48.0 4.47e-01 75.4% 59.0%
2gslF00 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.68 48.0 3.86e-01 77.0% 65.4%
2dt8A01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.67 51.0 3.83e-01 82.0% 46.3%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.67 49.0 4.58e-01 77.0% 100.0%
1cf7B00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 42.0 3.83e-01 83.6% 48.8%
3dmqA08 6.10.140.1500 Special › Helix non-globular › Helix Hairpins › 0.66 47.0 4.31e-01 77.0% 57.5%
2aplA01 1.10.8.330 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › PG0816-like 0.66 52.0 5.12e-01 90.2% 97.1%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.64 43.0 3.88e-01 85.2% 49.4%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.64 45.0 4.44e-01 95.1% 70.1%
1xdxA01 3.30.1140.40 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Tctex-1 0.64 47.0 3.99e-01 80.3% 48.0%
2guzB00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.63 44.0 4.34e-01 73.8% 69.2%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.63 41.0 4.07e-01 73.8% 64.1%
6ygiB01 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.63 46.0 3.53e-01 78.7% 62.3%
2qkdA02 2.60.120.1040 Mainly Beta › Sandwich › Jelly Rolls › ZPR1, A/B domain 0.63 43.0 3.35e-01 100.0% 31.4%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.63 54.0 3.62e-01 96.7% 37.7%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 44.0 4.17e-01 73.8% 61.6%
2pusA04 6.10.140.300 Special › Helix non-globular › Helix Hairpins › 0.62 41.0 3.47e-01 75.4% 38.9%
1tfeA02 1.10.286.20 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › 0.62 43.0 4.73e-01 75.4% 100.0%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.61 51.0 4.29e-01 100.0% 63.2%
1z9hA03 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 42.0 3.25e-01 73.8% 64.9%
4h8aB01 1.10.1530.10 Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel 0.60 50.0 5.07e-01 98.4% 96.7%
1e7uA05 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.60 44.0 3.13e-01 80.3% 37.2%
2x49A03 1.10.8.540 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › FHIPEP family, domain 3 0.60 48.0 4.35e-01 100.0% 64.4%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.60 42.0 3.77e-01 73.8% 52.9%
2y4tA02 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.59 40.0 4.23e-01 73.8% 82.7%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 42.0 3.93e-01 77.0% 72.0%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.58 40.0 4.07e-01 75.4% 100.0%
1zu4A01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.57 49.0 4.42e-01 100.0% 85.1%
1pu6A01 1.10.1670.10 Mainly Alpha › Orthogonal Bundle › Endonuclease Iii, domain 2 › Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal) 0.57 49.0 4.31e-01 100.0% 75.5%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.56 41.0 3.79e-01 77.0% 63.2%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.53 42.0 3.82e-01 82.0% 72.7%
3ed5A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.53 41.0 3.85e-01 91.8% 75.0%
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.53 48.0 3.86e-01 100.0% 54.3%
5hayA02 1.25.40.440 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Nucleoporin, helical domain, central subdomain 0.53 43.0 4.02e-01 96.7% 70.9%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5012687 5058.1.1.16 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.89 66.0 5.55e-01 77.0% 51.6%
5055969 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.89 65.0 5.54e-01 77.0% 51.6%
5003451 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.87 74.0 5.74e-01 96.7% 44.8%
4016157 6026.1.1.1 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.86 63.0 4.76e-01 77.0% 36.3%
4597483 5058.1.1.1 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1,MS_channel_1st 0.85 62.0 4.89e-01 77.0% 40.8%
2566193 5058.1.1.1 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1,MS_channel_1st 0.85 62.0 4.99e-01 77.0% 43.8%
5028558 5058.1.1.2 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.83 60.0 5.08e-01 77.0% 49.0%
3491670 614.1.1.0 ↗ alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain 0.83 58.0 6.09e-01 73.8% 81.8%
5054950 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.82 72.0 5.66e-01 98.4% 47.2%
3236436 6026.1.1.1 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.82 59.0 4.35e-01 75.4% 31.3%
5017842 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.82 59.0 5.25e-01 75.4% 56.5%
4940986 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.81 59.0 5.06e-01 77.0% 52.6%
3294636 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.81 58.0 4.64e-01 75.4% 48.7%
3643105 6026.1.1.1 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.81 59.0 4.32e-01 77.0% 31.6%
4400622 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.80 58.0 4.85e-01 77.0% 51.4%
5055210 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.80 65.0 6.42e-01 90.2% 93.8%
3621479 6026.1.1.1 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.79 57.0 5.06e-01 75.4% 55.3%
5047182 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.79 57.0 5.64e-01 77.0% 75.4%
4970333 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.75 55.0 4.72e-01 77.0% 54.7%
4463205 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.75 52.0 3.04e-01 72.1% 9.4%
3993361 622.4.1.41 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DUF7753 0.75 56.0 5.49e-01 80.3% 90.8%
3476064 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.73 50.0 3.95e-01 70.5% 36.7%
4547644 109.4.1.228 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo84_C 0.73 51.0 3.53e-01 75.4% 22.3%
4988048 3788.1.1.0 ↗ alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.73 59.0 5.98e-01 96.7% 95.0%
5079848 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.72 52.0 5.28e-01 77.0% 88.3%
3619662 192.12.1.3 ↗ alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › DUF747 0.72 50.0 4.58e-01 72.1% 65.0%
3643902 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.72 52.0 4.07e-01 77.0% 37.7%
3755193 4146.1.1.7 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like › DMAP_binding 0.72 59.0 5.41e-01 96.7% 70.0%
3344802 6158.1.1.0 ↗ alpha bundles › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region 0.70 52.0 5.09e-01 78.7% 75.4%
4669981 230.3.1.0 ↗ a+b two layers › T-fold › Elongation factor Ts (EF-Ts), dimerisation domain › Elongation factor Ts (EF-Ts), dimerisation domain 0.70 51.0 3.88e-01 78.7% 53.8%
3967290 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.69 47.0 4.52e-01 70.5% 62.9%
3438234 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.69 54.0 5.29e-01 86.9% 78.5%
3850399 3788.1.1.13 ↗ alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › DMAP_binding 0.69 56.0 5.09e-01 98.4% 65.6%
3438464 5063.1.1.0 ↗ alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.68 50.0 5.38e-01 78.7% 96.0%
4119015 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 51.0 5.21e-01 96.7% 86.7%
3188842 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.67 52.0 4.14e-01 85.2% 84.0%
3510564 1128.1.1.0 ↗ alpha bundles › LYR protein › LYR protein › LYR protein 0.67 55.0 4.72e-01 95.1% 64.1%
4994340 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.66 46.0 3.46e-01 73.8% 39.3%
5043641 205.1.1.16 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_7 0.65 55.0 3.94e-01 98.4% 70.8%
5060248 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.65 54.0 5.23e-01 100.0% 98.6%
3255785 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.64 50.0 4.15e-01 85.2% 95.5%
3340051 509.1.1.1 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.64 50.0 4.63e-01 91.8% 66.3%
3592945 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.64 44.0 3.75e-01 72.1% 53.7%
3837289 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.63 51.0 5.02e-01 90.2% 83.1%
3653731 207.1.1.143 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_14, LRR_R13L1-DRL21 0.63 54.0 3.18e-01 100.0% 11.6%
3801315 509.1.1.2 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › CCM2_C 0.62 48.0 4.75e-01 93.4% 80.0%
4990523 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.61 40.0 3.53e-01 70.5% 44.2%
3701873 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.60 52.0 4.32e-01 98.4% 85.5%
5017220 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 48.0 4.69e-01 88.5% 81.5%
5032477 129.1.1.15 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › P5CR_dimer 0.57 42.0 3.54e-01 83.6% 44.5%