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Filtrate_w_scaffold_3_prodigal-single.1__X__X__00145

Bact-Vir

Filtrate_w_scaffold_3_prodigal-single.1__X__X__00145

Identity

Kingdom:
phage

Quality

83.9 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 3-58
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.87 60.0 6.35e-01 82.1% 81.6%
2ygwA01 1.20.140.90 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Malonyl-CoA decarboxylase, oligemerization domain 0.84 59.0 4.20e-01 73.2% 26.8%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.84 63.0 6.03e-01 85.7% 69.2%
4od8D00 6.10.140.1880 Special › Helix non-globular › Helix Hairpins › 0.82 58.0 6.13e-01 100.0% 82.4%
2wyhB04 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.81 61.0 4.94e-01 85.7% 44.6%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.79 62.0 5.06e-01 85.7% 48.5%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.78 70.0 6.53e-01 100.0% 82.9%
1ldjA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.78 63.0 4.79e-01 100.0% 39.2%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.77 59.0 5.87e-01 83.9% 81.0%
5ux1D00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.77 64.0 4.38e-01 92.9% 28.4%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 60.0 5.80e-01 85.7% 81.2%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.76 61.0 5.21e-01 85.7% 60.5%
2itbB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 63.0 4.32e-01 92.9% 28.3%
3k3oA02 1.20.58.1360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 70.0 6.00e-01 100.0% 76.2%
4kzsA02 6.10.140.1870 Special › Helix non-globular › Helix Hairpins › 0.75 65.0 6.03e-01 100.0% 77.1%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 57.0 5.72e-01 85.7% 80.7%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.72 54.0 5.31e-01 85.7% 73.8%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 62.0 4.25e-01 100.0% 29.0%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.71 51.0 4.85e-01 85.7% 64.6%
1t72A02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.71 61.0 5.18e-01 100.0% 74.5%
2d9dA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.69 53.0 4.59e-01 83.9% 53.9%
4ex8A00 3.40.1790.10 Alpha Beta › 3-Layer(aba) Sandwich › Indigoidine synthase fold › Indigoidine synthase domain 0.69 52.0 3.25e-01 80.4% 48.5%
1y74A00 1.10.287.650 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain 0.69 49.0 4.92e-01 75.0% 73.7%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.68 58.0 4.64e-01 100.0% 60.7%
3bemB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.67 50.0 3.31e-01 78.6% 53.1%
3rx6A00 1.20.58.1090 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer 0.66 55.0 3.88e-01 96.4% 75.9%
4bpxD00 1.20.930.80 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.65 52.0 3.44e-01 85.7% 80.8%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.65 58.0 4.66e-01 100.0% 73.4%
1xdxA01 3.30.1140.40 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Tctex-1 0.65 41.0 3.41e-01 75.0% 36.0%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.64 46.0 4.81e-01 100.0% 86.0%
3iylU02 1.10.287.1520 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 50.0 5.20e-01 83.9% 88.7%
3of4A00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.63 50.0 3.38e-01 87.5% 55.6%
3he0B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.62 55.0 3.80e-01 96.4% 51.7%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 47.0 3.79e-01 80.4% 43.8%
1sz9C00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.61 48.0 3.73e-01 100.0% 36.4%
2d2sA02 1.20.58.1220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, C-terminal helical domain 0.61 50.0 4.16e-01 92.9% 59.4%
5uh5D02 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.60 55.0 4.05e-01 100.0% 73.2%
4cpgA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.60 43.0 4.09e-01 92.9% 63.8%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.56 45.0 4.46e-01 98.2% 85.0%
1rsoB00 1.10.287.650 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain 0.56 39.0 3.97e-01 76.8% 75.0%
3qxzA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.55 41.0 4.12e-01 89.3% 91.7%
1yfmA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.55 43.0 3.33e-01 85.7% 76.2%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3928221 4.1.1.310 beta barrels › SH3 › SH3 › SH3 › PF26050 0.88 72.0 5.16e-01 87.5% 34.3%
3928795 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.88 70.0 5.78e-01 85.7% 50.5%
3670746 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.86 69.0 5.26e-01 85.7% 40.8%
3185917 375.1.9.12 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase › Wbp11 0.86 68.0 5.87e-01 85.7% 57.6%
3355246 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.85 68.0 5.99e-01 85.7% 77.5%
3676390 3559.1.1.0 a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 0.85 68.0 5.21e-01 85.7% 40.8%
3930934 5054.1.1.8 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.85 69.0 4.29e-01 87.5% 32.1%
4384067 632.7.1.37 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › LETM1_RBD 0.84 67.0 5.29e-01 91.1% 43.6%
3256821 603.1.1.99 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27021 0.84 76.0 5.83e-01 100.0% 57.5%
3723174 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.83 66.0 5.97e-01 85.7% 65.3%
2485668 7025.1.1.2 alpha bundles › LIN9-LIN52 heterodimer › LIN9-LIN52 heterodimer › LIN9-LIN52 heterodimer › LIN9_C 0.82 66.0 5.73e-01 87.5% 66.7%
4015612 616.1.1.0 alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.82 64.0 5.57e-01 85.7% 57.6%
3713159 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.81 73.0 5.64e-01 100.0% 67.5%
3933048 4992.1.1.12 extended segments › RelB-like › RelB-like › RelB-like › LIN9_C 0.81 64.0 5.23e-01 85.7% 53.0%
5083776 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.81 73.0 6.05e-01 100.0% 74.7%
3260684 377.1.1.0 few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.79 60.0 6.08e-01 82.1% 83.6%
4025064 616.1.1.0 alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.77 61.0 5.79e-01 83.9% 73.8%
3788679 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 67.0 4.10e-01 100.0% 16.6%
5030299 633.16.1.0 alpha bundles › Bromodomain-like › PMT helical bundle domain-like › PMT helical bundle domain-like 0.75 67.0 5.97e-01 100.0% 77.5%
4961961 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.75 59.0 5.33e-01 85.7% 65.3%
5055565 192.15.1.224 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › SHOCT 0.73 59.0 4.41e-01 85.7% 37.7%
5054079 192.4.1.0 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.73 60.0 5.25e-01 87.5% 62.5%
3486312 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.73 58.0 4.49e-01 85.7% 41.2%
4988250 3745.1.1.1 alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.73 61.0 3.79e-01 94.6% 75.0%
4000037 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.72 57.0 5.57e-01 85.7% 81.7%
3931480 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.72 63.0 5.40e-01 100.0% 70.0%
4008053 4168.1.1.7 alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › PF26769 0.71 56.0 3.99e-01 85.7% 29.7%
5049361 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.71 63.0 5.57e-01 100.0% 81.2%
3718498 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.70 59.0 5.17e-01 100.0% 74.4%
3700089 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 55.0 5.27e-01 85.7% 75.4%
4106620 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.69 54.0 4.91e-01 85.7% 65.3%
2636640 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.68 60.0 5.38e-01 96.4% 80.5%
3927675 2004.1.1.600 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn, AAA_21 0.68 54.0 3.11e-01 91.1% 10.7%
3289545 150.8.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE 0.67 52.0 3.63e-01 85.7% 26.8%
3725377 192.15.1.44 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.66 55.0 4.67e-01 91.1% 61.1%
3491875 4146.1.1.0 alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.65 46.0 4.50e-01 82.1% 68.3%
3762669 4970.1.1.16 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › TMEM218_N 0.64 46.0 3.80e-01 83.9% 41.0%
5076400 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 0.63 51.0 4.21e-01 85.7% 55.8%
4005270 3718.1.1.15 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › COX4_pro 0.62 47.0 4.03e-01 83.9% 50.5%
4231910 4168.1.1.1 alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › HAMP 0.62 51.0 3.99e-01 87.5% 48.2%
D2 high residues 68-133
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2r0rB00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.65 47.0 4.52e-01 78.8% 96.2%
2g9wA01 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 0.62 48.0 4.80e-01 83.3% 91.0%
1vsgA02 1.10.470.10 Mainly Alpha › Orthogonal Bundle › Variant Surface Glycoprotein, subunit A; domain 2 › Variant Surface Glycoprotein, subunit A, domain 2 0.60 47.0 3.60e-01 86.4% 73.6%
5y6iA01 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 0.60 48.0 4.67e-01 89.4% 94.5%
6vxcA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.59 46.0 2.62e-01 86.4% 12.5%
1khdA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.56 39.0 3.46e-01 90.9% 49.0%
3q45A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.55 42.0 3.51e-01 84.8% 50.8%
1w36B04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.53 41.0 3.27e-01 86.4% 45.9%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3595200 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.72 57.0 5.60e-01 87.9% 88.6%
3713060 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.71 56.0 5.19e-01 87.9% 72.9%
3836397 101.1.1.138 alpha arrays › HTH › HTH › Three-helical HTH › GeBP-like_DBD 0.66 52.0 4.85e-01 87.9% 90.6%
4965014 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.62 48.0 4.71e-01 83.3% 92.9%
4940863 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.61 47.0 4.38e-01 84.8% 75.9%
3473525 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.58 40.0 4.02e-01 81.8% 73.8%
3768461 101.1.1.1 alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain 0.58 49.0 4.57e-01 98.5% 81.2%
5030126 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 45.0 4.20e-01 93.9% 90.6%