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BML_coassembly_scaffold_50_prodigal-single.1__X__X__00085

Bact-Vir

BML_coassembly_scaffold_50_prodigal-single.1__X__X__00085

Identity

Kingdom:
phage

Quality

65.8 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 5-49
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7v8fB01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.53 41.0 3.38e-01 93.3% 54.3%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4962856 375.1.1.349 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF26408 0.70 53.0 5.56e-01 97.8% 92.5%
4111189 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 41.0 3.82e-01 100.0% 53.3%
4526174 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 50.0 5.02e-01 100.0% 88.9%
5033134 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 43.0 4.37e-01 97.8% 91.1%
3265494 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 45.0 4.56e-01 100.0% 95.6%
D2 high residues 62-120
PDB
Domain cluster: representative
CATH (61)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nivC02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.71 53.0 4.15e-01 89.8% 37.9%
4pxoA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.71 53.0 4.06e-01 88.1% 35.9%
1x2nA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.70 54.0 5.44e-01 86.4% 83.3%
2w9zA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.69 60.0 4.64e-01 98.3% 59.4%
3t9oB00 1.20.120.30 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain 0.68 53.0 4.14e-01 83.1% 91.7%
1r4aE00 1.10.220.60 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › GRIP domain 0.67 37.0 4.01e-01 81.4% 62.7%
2da7A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.66 48.0 4.53e-01 84.7% 64.8%
2i0mA02 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 0.66 49.0 4.09e-01 100.0% 46.5%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.66 45.0 3.37e-01 71.2% 50.4%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.66 46.0 3.72e-01 100.0% 37.6%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.65 49.0 4.84e-01 100.0% 75.0%
2dq0A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.65 45.0 3.77e-01 93.2% 41.1%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.64 48.0 4.81e-01 100.0% 78.7%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.64 47.0 3.96e-01 86.4% 45.3%
4nqwA02 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 0.63 54.0 5.34e-01 96.6% 89.1%
2jgdB02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.63 47.0 2.97e-01 81.4% 83.8%
1ku3A00 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 0.63 54.0 5.41e-01 96.6% 95.1%
2kt0A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.62 40.0 4.35e-01 72.9% 83.0%
3hugA00 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 53.0 4.90e-01 100.0% 75.0%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.62 47.0 3.84e-01 100.0% 43.0%
1xwyA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.62 51.0 3.38e-01 94.9% 52.3%
3t0yA02 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 52.0 5.21e-01 93.2% 91.7%
2w7nA00 1.10.10.2690 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 53.0 4.59e-01 98.3% 66.0%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.61 51.0 4.80e-01 100.0% 77.5%
2ke4A00 6.10.140.470 Special › Helix non-globular › Helix Hairpins › 0.61 49.0 4.28e-01 100.0% 57.1%
1qd1B02 3.30.70.670 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Formiminotransferase, C-terminal subdomain 0.61 43.0 3.20e-01 74.6% 46.9%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.61 42.0 3.87e-01 74.6% 55.1%
2o8xA00 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 50.0 4.96e-01 91.5% 88.5%
4it4A02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.60 50.0 4.40e-01 94.9% 70.3%
1fc3B00 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 51.0 4.32e-01 98.3% 69.3%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.59 48.0 4.36e-01 100.0% 66.7%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.59 50.0 4.55e-01 100.0% 70.5%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 48.0 4.57e-01 100.0% 75.3%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 49.0 4.04e-01 93.2% 76.9%
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 0.59 45.0 4.80e-01 93.2% 100.0%
5f64A02 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 0.58 47.0 4.40e-01 91.5% 70.7%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.58 45.0 3.78e-01 88.1% 82.6%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.58 48.0 4.25e-01 96.6% 62.2%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 48.0 4.83e-01 98.3% 93.2%
1f5qB02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.57 49.0 3.80e-01 98.3% 51.4%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 49.0 4.48e-01 100.0% 71.6%
6vddA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.57 50.0 4.05e-01 100.0% 82.6%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.56 50.0 4.57e-01 100.0% 76.6%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.56 50.0 4.42e-01 100.0% 74.4%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.56 48.0 4.37e-01 94.9% 77.2%
1t72A01 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 0.56 46.0 3.78e-01 94.9% 70.1%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 41.0 3.44e-01 100.0% 42.5%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 46.0 3.78e-01 100.0% 49.1%
2dw4A03 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.56 49.0 4.09e-01 100.0% 57.4%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.56 49.0 4.10e-01 100.0% 60.2%
2q00B00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.56 45.0 3.61e-01 91.5% 65.6%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.56 49.0 4.95e-01 100.0% 98.3%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.56 47.0 3.85e-01 94.9% 80.2%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 49.0 4.05e-01 100.0% 56.9%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 45.0 4.19e-01 100.0% 71.8%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.55 43.0 4.35e-01 100.0% 91.4%
3h4cA02 1.10.472.110 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › 0.53 43.0 3.66e-01 96.6% 70.0%
4e21B02 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 0.53 46.0 3.50e-01 96.6% 73.0%
6ofsA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.53 40.0 2.85e-01 88.1% 25.1%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.53 47.0 4.56e-01 100.0% 89.6%
3c2bA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.50 40.0 3.10e-01 93.2% 49.7%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4945888 5041.1.1.0 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.67 52.0 4.76e-01 100.0% 63.7%
3707222 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.65 47.0 4.85e-01 76.3% 81.8%
3723174 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.65 49.0 4.55e-01 100.0% 64.0%
5009652 101.1.1.540 alpha arrays › HTH › HTH › Three-helical HTH › HTH_10 0.65 58.0 5.61e-01 100.0% 96.9%
3735470 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.65 50.0 4.93e-01 88.1% 76.9%
4008053 4168.1.1.7 alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › PF26769 0.63 48.0 3.52e-01 100.0% 29.7%
3725377 192.15.1.44 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.63 50.0 4.36e-01 100.0% 56.7%
4424778 605.2.1.3 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.61 48.0 3.94e-01 100.0% 46.4%
3799245 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 51.0 3.23e-01 98.3% 27.8%
3517330 603.2.1.1 alpha bundles › STAT-like › STAT › STAT › STAT_alpha 0.59 51.0 3.46e-01 94.9% 73.3%
5023515 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.59 49.0 3.02e-01 100.0% 15.1%
4147453 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.58 51.0 4.19e-01 100.0% 59.1%
4175087 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.58 51.0 4.16e-01 100.0% 59.1%
4120406 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.58 51.0 4.17e-01 100.0% 58.2%
4359654 605.2.1.3 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.57 51.0 4.13e-01 100.0% 59.1%
4043484 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.57 50.0 4.12e-01 100.0% 59.1%
3550353 3602.1.1.0 alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.57 50.0 4.86e-01 100.0% 93.8%
4971101 301.6.1.0 a+b three layers › Bacillus chorismate mutase-like › Tubulin C-terminal domain-like › Tubulin C-terminal domain-like 0.56 45.0 3.35e-01 94.9% 93.1%
1034882 3567.1.1.2 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › GP41 0.56 50.0 4.49e-01 100.0% 75.6%
3735933 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 47.0 3.53e-01 94.9% 81.4%
3385366 601.14.1.9 alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Piezo_THU9_anchor 0.55 48.0 3.75e-01 98.3% 53.1%
3275446 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.55 46.0 3.61e-01 94.9% 100.0%
3704099 2004.1.1.480 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21, AAA_29 0.55 48.0 2.90e-01 100.0% 14.8%
3522496 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.54 46.0 3.36e-01 100.0% 34.5%
4316383 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 0.53 45.0 3.89e-01 100.0% 60.0%
3486312 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.53 45.0 3.60e-01 100.0% 47.9%
3276289 4106.1.1.1 few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.53 46.0 3.12e-01 100.0% 48.0%
4385365 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.52 45.0 3.72e-01 100.0% 64.5%
4273807 314.1.1.0 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.52 43.0 2.63e-01 100.0% 13.2%
D3 high residues 130-207
PDB