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JGI24723J26617_10000007_prodigal-single.1__X__X__00130

Bact-Vir

JGI24723J26617_10000007_prodigal-single.1__X__X__00130

Identity

Kingdom:
phage

Quality

67.9 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 12-72
PDB
Domain cluster: representative
D2 medium residues 90-150
PDB
Domain cluster: representative
CATH (54)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3e3vA03 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 0.80 66.0 6.83e-01 100.0% 98.2%
4ye6A02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.79 66.0 6.76e-01 93.4% 96.6%
2xigA01 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 0.79 58.0 5.08e-01 93.4% 52.7%
7yulA01 1.10.10.2590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › BEN domain 0.76 64.0 5.71e-01 91.8% 88.2%
4mtdD01 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 0.76 55.0 4.94e-01 93.4% 54.5%
3vw4A01 1.10.340.50 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.74 64.0 5.68e-01 100.0% 69.6%
3eyyA01 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 0.74 53.0 4.88e-01 93.4% 57.3%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.71 62.0 5.45e-01 100.0% 67.0%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.71 60.0 5.10e-01 100.0% 57.7%
3cuqA02 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 0.71 62.0 5.73e-01 100.0% 82.7%
3cymA03 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.70 48.0 4.25e-01 70.5% 87.5%
3tl4X02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.69 60.0 5.70e-01 100.0% 83.3%
6ks6Z01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.69 60.0 3.94e-01 100.0% 62.5%
3q23A08 1.20.140.110 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.68 49.0 3.70e-01 78.7% 31.8%
3cxbA03 1.10.1740.30 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Secreted effector protein SifA helical domain 0.66 50.0 4.62e-01 88.5% 61.7%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 57.0 5.25e-01 100.0% 89.0%
3u4qA02 1.10.274.50 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › 0.66 47.0 3.60e-01 77.0% 80.7%
3v9rA00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.66 47.0 4.20e-01 86.9% 53.4%
2co9A00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.65 44.0 3.71e-01 70.5% 42.2%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 45.0 4.08e-01 86.9% 55.6%
3tjmA02 1.10.1470.20 Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 0.64 48.0 4.27e-01 82.0% 64.4%
3ndaA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.63 51.0 3.49e-01 91.8% 38.0%
3lqhA02 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.63 51.0 4.24e-01 88.5% 50.9%
2vxdA00 1.10.10.2100 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Nucleophosmin, C-terminal domain 0.62 48.0 5.06e-01 100.0% 98.1%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 46.0 4.09e-01 78.7% 58.8%
1v4aA03 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.61 50.0 3.73e-01 88.5% 43.8%
2e6oA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.61 40.0 3.58e-01 70.5% 47.1%
2icwG02 1.10.10.530 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › mam-mhc complex, Chain D, Domain 2 0.60 51.0 4.61e-01 100.0% 69.7%
1jqkA03 1.20.1270.30 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 47.0 3.35e-01 83.6% 61.1%
1xo0A01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.60 53.0 4.38e-01 100.0% 56.8%
2vixA03 1.20.1280.240 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.60 51.0 4.27e-01 100.0% 54.0%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 46.0 4.35e-01 88.5% 72.2%
1kmiZ02 1.10.287.500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.60 45.0 3.47e-01 80.3% 38.1%
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 43.0 4.54e-01 85.2% 87.0%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.58 43.0 4.22e-01 95.1% 74.6%
1hciA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 49.0 3.85e-01 93.4% 73.0%
2kg7B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 41.0 3.63e-01 78.7% 62.9%
3edvB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 51.0 3.91e-01 98.4% 64.7%
2uxwA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 48.0 3.45e-01 95.1% 78.5%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.57 47.0 3.85e-01 88.5% 50.0%
2xgcA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 48.0 3.80e-01 96.7% 52.3%
4lunU00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 50.0 3.16e-01 100.0% 22.2%
1dnpA02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 47.0 3.81e-01 98.4% 97.6%
3vvmA02 1.10.1740.110 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.55 47.0 4.02e-01 98.4% 97.1%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.55 42.0 3.60e-01 83.6% 59.6%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.54 45.0 3.97e-01 90.2% 78.2%
2fzlA02 6.10.140.1180 Special › Helix non-globular › Helix Hairpins › 0.54 45.0 4.50e-01 93.4% 95.2%
4nsmA00 6.10.250.2770 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.53 46.0 4.42e-01 95.1% 100.0%
1b04A03 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.53 47.0 4.77e-01 100.0% 98.4%
3hl1A02 6.10.140.1530 Special › Helix non-globular › Helix Hairpins › 0.53 46.0 4.57e-01 98.4% 95.4%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.52 45.0 4.11e-01 93.4% 85.0%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 45.0 3.66e-01 93.4% 68.5%
2lefA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.52 38.0 3.45e-01 83.6% 57.0%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 44.0 3.64e-01 100.0% 78.6%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4304583 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.85 68.0 6.64e-01 95.1% 80.0%
3672635 101.1.1.295 alpha arrays › HTH › HTH › Three-helical HTH › HTH_70 0.83 67.0 6.22e-01 100.0% 70.7%
3993576 610.3.1.3 alpha arrays › ERP29 C domain-like › GatB/GatE C-terminal domain › GatB/GatE C-terminal domain › tRNA_synt_1c_R1 0.80 69.0 4.95e-01 100.0% 34.5%
3504507 610.3.1.3 alpha arrays › ERP29 C domain-like › GatB/GatE C-terminal domain › GatB/GatE C-terminal domain › tRNA_synt_1c_R1 0.79 67.0 4.75e-01 96.7% 31.4%
3652636 101.1.1.295 alpha arrays › HTH › HTH › Three-helical HTH › HTH_70 0.75 66.0 6.04e-01 100.0% 75.0%
3641099 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.75 60.0 6.06e-01 100.0% 88.3%
3668677 4133.1.1.1 alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › ENT 0.73 59.0 5.62e-01 100.0% 75.7%
5006976 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.73 67.0 4.79e-01 100.0% 38.4%
3831185 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 0.72 53.0 5.12e-01 78.7% 91.4%
3936891 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.72 64.0 5.54e-01 100.0% 81.1%
3648582 622.2.1.2 alpha bundles › YvfG-like › YvfG-like › YvfG-like › Ovate 0.72 60.0 5.57e-01 95.1% 78.8%
3174920 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.71 47.0 4.20e-01 73.8% 48.2%
3581762 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.71 61.0 5.17e-01 100.0% 58.1%
4931192 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.70 59.0 5.94e-01 93.4% 95.0%
3548278 2484.1.1.104 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_1 0.70 49.0 3.33e-01 73.8% 22.3%
4567935 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.70 62.0 6.09e-01 100.0% 98.5%
3506153 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.70 46.0 4.11e-01 70.5% 49.4%
None 0.67 45.0 4.71e-01 72.1% 76.4%
3435944 101.35.1.23 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › Ovate 0.67 57.0 5.61e-01 96.7% 92.3%
3822810 1128.1.1.13 alpha bundles › LYR protein › LYR protein › LYR protein › PF30094 0.67 47.0 4.08e-01 75.4% 50.0%
3398172 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.67 45.0 3.76e-01 72.1% 40.0%
4258385 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.67 44.0 4.08e-01 70.5% 54.7%
3278726 101.1.1.282 alpha arrays › HTH › HTH › Three-helical HTH › DUF222 0.66 57.0 4.60e-01 100.0% 48.8%
4531598 4970.1.1.14 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 › RRP36 0.66 46.0 3.39e-01 73.8% 28.4%
3909150 5063.1.1.15 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › OCIA 0.65 46.0 4.40e-01 77.0% 98.7%
3323413 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.65 43.0 3.91e-01 72.1% 49.4%
3220045 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.64 55.0 4.40e-01 100.0% 51.5%
3399908 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.63 42.0 3.94e-01 72.1% 56.0%
3635635 3826.1.1.26 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › RRP36 0.63 45.0 3.50e-01 78.7% 43.8%
3734404 1128.1.1.1 alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.63 44.0 4.03e-01 85.2% 56.2%
3805676 1128.1.1.13 alpha bundles › LYR protein › LYR protein › LYR protein › PF30094 0.62 47.0 4.15e-01 80.3% 61.1%
3933555 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.62 42.0 3.80e-01 72.1% 50.6%
3600920 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.61 52.0 3.97e-01 100.0% 60.6%
4015450 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.60 43.0 4.15e-01 77.0% 67.1%
3264507 1128.1.1.1 alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.60 45.0 4.16e-01 78.7% 64.0%
4017639 1065.1.1.0 alpha bundles › SPX domain › SPX domain › SPX domain 0.60 51.0 3.77e-01 100.0% 68.0%
4981587 3930.1.1.0 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.60 50.0 3.93e-01 100.0% 43.8%
3705890 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.59 41.0 3.58e-01 73.8% 46.3%
5064025 3930.1.1.3 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase › RNA_helicase_helical 0.59 45.0 3.66e-01 83.6% 89.2%
3864894 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.59 39.0 3.58e-01 72.1% 49.4%
3171915 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.58 39.0 3.54e-01 72.1% 49.4%
3470186 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.57 38.0 3.44e-01 72.1% 46.7%
4344838 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.57 40.0 3.70e-01 75.4% 56.2%
3533358 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.57 39.0 3.48e-01 75.4% 47.4%
4283815 1.1.9.5 beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.56 41.0 2.67e-01 77.0% 17.4%
3925617 192.5.1.14 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1_TOCA 0.56 46.0 4.11e-01 88.5% 74.1%
3730112 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.56 39.0 2.97e-01 73.8% 83.9%
3507551 192.5.1.0 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.55 46.0 3.93e-01 95.1% 57.9%
3254719 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.55 49.0 4.20e-01 100.0% 83.2%
3770974 4956.1.1.0 a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.54 36.0 3.63e-01 73.8% 68.3%
5058631 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.54 46.0 4.50e-01 93.4% 84.6%
3757568 604.1.1.1 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.54 48.0 4.03e-01 100.0% 81.9%
4953123 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.54 47.0 2.82e-01 95.1% 16.4%
4453591 3602.1.1.4 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 › RRP36 0.54 43.0 3.32e-01 86.9% 42.2%
3750000 604.1.1.1 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.53 47.0 3.92e-01 98.4% 81.9%
3813837 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.52 39.0 3.72e-01 83.6% 76.0%
3507547 4995.1.1.0 alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like 0.51 45.0 4.32e-01 100.0% 88.6%
2010400 190.1.1.1 alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.51 36.0 3.46e-01 75.4% 68.1%
3737780 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.51 45.0 3.84e-01 98.4% 77.0%
3853566 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.51 45.0 3.69e-01 100.0% 67.8%
4679602 140.1.1.7 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › DALR_2 0.51 46.0 3.52e-01 100.0% 71.9%