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HM004124.1__ADG60150.1__Acj9p250__00250

Bact-Vir

HM004124.1__ADG60150.1__Acj9p250__00250

Identity

Accession:
HM004124 ↗
Kingdom:
phage

Quality

84.5 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 1-57
PDB
Domain cluster: representative
CATH (70)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.94 82.0 8.42e-01 98.2% 98.1%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.90 78.0 6.97e-01 100.0% 68.8%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.90 80.0 6.90e-01 100.0% 64.7%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.88 82.0 6.58e-01 100.0% 75.7%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.88 77.0 6.68e-01 100.0% 64.3%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.87 80.0 6.48e-01 100.0% 66.7%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.87 71.0 7.06e-01 100.0% 84.7%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.86 74.0 7.11e-01 100.0% 82.8%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 80.0 7.27e-01 100.0% 89.0%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.86 76.0 6.79e-01 94.7% 80.3%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.85 71.0 5.39e-01 94.7% 41.1%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.85 74.0 7.13e-01 100.0% 85.7%
1hr5A00 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 0.85 65.0 6.98e-01 100.0% 97.9%
3pt1A02 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.84 78.0 5.92e-01 100.0% 70.8%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.83 76.0 6.00e-01 100.0% 71.4%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 64.0 5.78e-01 80.7% 85.1%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 67.0 5.49e-01 100.0% 49.5%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.83 72.0 7.07e-01 100.0% 88.7%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 70.0 6.60e-01 100.0% 78.3%
1grjA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.82 73.0 6.69e-01 100.0% 79.7%
2p4vA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.81 73.0 6.60e-01 100.0% 77.6%
2a2cA03 1.20.1440.340 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.81 68.0 5.02e-01 91.2% 59.4%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.81 72.0 6.78e-01 100.0% 85.3%
4gczA03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.81 73.0 6.99e-01 100.0% 87.7%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.81 72.0 5.06e-01 100.0% 34.9%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.81 72.0 6.19e-01 100.0% 98.9%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.80 74.0 5.93e-01 100.0% 57.1%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.80 65.0 6.81e-01 89.5% 100.0%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.80 73.0 4.45e-01 100.0% 17.2%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 66.0 6.01e-01 100.0% 68.8%
1kvkA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.79 66.0 4.84e-01 98.2% 35.8%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.78 70.0 5.74e-01 100.0% 62.7%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.78 63.0 5.19e-01 94.7% 49.5%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 69.0 6.32e-01 100.0% 100.0%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.77 64.0 6.31e-01 94.7% 88.7%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 67.0 5.90e-01 100.0% 68.2%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.76 67.0 5.98e-01 100.0% 80.5%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 68.0 5.62e-01 100.0% 58.4%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 65.0 5.80e-01 100.0% 67.1%
4gzrC00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.76 63.0 6.20e-01 93.0% 95.1%
4aurA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.76 69.0 4.36e-01 100.0% 38.0%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 68.0 6.55e-01 100.0% 100.0%
8fbnB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.76 66.0 4.45e-01 100.0% 26.1%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 66.0 6.12e-01 100.0% 77.0%
3etvA01 1.10.287.3290 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 61.0 5.43e-01 93.0% 61.9%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 65.0 6.05e-01 98.2% 84.9%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.75 65.0 5.91e-01 100.0% 82.1%
2kp8A00 1.20.5.170 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.75 63.0 5.92e-01 96.5% 76.4%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 65.0 6.21e-01 100.0% 88.2%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.75 66.0 6.45e-01 100.0% 93.7%
1st6A02 1.20.120.810 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle 0.75 68.0 4.42e-01 100.0% 99.2%
3p4tA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.74 63.0 4.75e-01 100.0% 38.0%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.74 57.0 5.47e-01 93.0% 73.8%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.74 63.0 5.96e-01 98.2% 78.9%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.73 64.0 5.93e-01 100.0% 77.0%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.73 64.0 6.00e-01 98.2% 88.7%
6ygiB01 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.73 64.0 4.77e-01 100.0% 52.7%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.73 62.0 6.01e-01 96.5% 84.4%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 60.0 4.97e-01 100.0% 50.5%
2qe7G01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.73 63.0 5.33e-01 100.0% 81.4%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.72 62.0 4.74e-01 96.5% 42.1%
4q5nA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.72 59.0 4.76e-01 91.2% 59.8%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.72 61.0 5.11e-01 100.0% 53.8%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.70 59.0 5.05e-01 100.0% 60.6%
3lphC00 6.10.140.630 Special › Helix non-globular › Helix Hairpins › 0.70 57.0 5.71e-01 100.0% 93.1%
5lnkA00 1.20.58.1610 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 0.70 58.0 4.75e-01 100.0% 48.7%
3ns4A00 1.10.357.110 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Vacuolar protein sorting-associated protein 53, C-terminus 0.68 56.0 3.97e-01 100.0% 27.8%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.67 52.0 5.39e-01 87.7% 94.1%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.66 57.0 5.34e-01 98.2% 83.1%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 54.0 4.93e-01 100.0% 81.9%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4870242 4009.1.1.1 alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › ARMT1-like_dom 0.96 91.0 6.56e-01 100.0% 62.3%
4465072 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.92 85.0 6.59e-01 100.0% 49.6%
4038778 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.91 82.0 6.37e-01 100.0% 48.7%
4401282 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.90 83.0 6.41e-01 100.0% 49.6%
4197529 4992.1.1.23 extended segments › RelB-like › RelB-like › RelB-like › Seryl_tRNA_N 0.89 81.0 6.43e-01 100.0% 51.8%
3670053 603.1.1.107 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Mlo 0.88 77.0 6.55e-01 100.0% 61.1%
3533511 3911.1.1.1 extended segments › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Sas10_Utp3 0.86 75.0 6.38e-01 100.0% 60.0%
3348910 192.1.1.46 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › DUF3475 0.86 78.0 5.15e-01 100.0% 27.3%
3937465 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.86 79.0 5.17e-01 100.0% 27.0%
149872 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.86 73.0 6.51e-01 100.0% 67.1%
3350539 192.23.1.6 alpha bundles › Long alpha-hairpin › DUF683 › DUF683 › Med10 0.85 76.0 6.62e-01 100.0% 65.9%
3396848 633.10.1.0 alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.85 78.0 5.92e-01 100.0% 46.0%
3743830 3911.1.1.1 extended segments › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Sas10_Utp3 0.85 74.0 6.27e-01 100.0% 60.0%
4474737 3711.1.1.44 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › Med11 0.84 77.0 6.53e-01 100.0% 63.3%
5057549 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.83 77.0 5.92e-01 100.0% 48.3%
60297 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.83 73.0 6.70e-01 100.0% 76.0%
4942772 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 0.82 73.0 6.97e-01 100.0% 86.2%
3221299 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.82 74.0 5.51e-01 100.0% 43.0%
3215306 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.82 72.0 6.34e-01 100.0% 67.1%
3962893 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.81 71.0 6.01e-01 100.0% 67.4%
5074487 109.4.1.5 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1 0.80 71.0 4.23e-01 98.2% 14.4%
3565534 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.79 70.0 4.55e-01 100.0% 24.1%
3408094 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.78 71.0 5.28e-01 100.0% 43.7%
4286197 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 0.77 67.0 6.02e-01 100.0% 75.0%
3409681 3911.1.1.1 extended segments › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Exosome complex protein LRP1 › Sas10_Utp3 0.76 67.0 5.60e-01 100.0% 57.0%
3349325 5086.1.1.135 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF7615 0.75 65.0 5.90e-01 100.0% 71.2%
5035167 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 0.75 66.0 3.94e-01 100.0% 14.1%
3211184 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.75 66.0 5.65e-01 98.2% 64.4%
5012794 4333.1.1.0 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.75 64.0 3.91e-01 100.0% 15.8%
4954892 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 0.75 64.0 3.93e-01 100.0% 15.8%
3971706 5071.3.1.1 alpha bundles › cytochrome bc1 complex 11 kDa protein-like › DUF465 › DUF465 › DUF465 0.74 64.0 6.05e-01 98.2% 84.3%
3354385 3755.1.1.22 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › DUF3475 0.74 62.0 4.34e-01 100.0% 83.9%
4984327 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.72 61.0 5.07e-01 100.0% 53.3%
3797638 3456.1.1.0 extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A 0.72 61.0 4.97e-01 100.0% 52.2%
4483079 2004.1.1.429 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_15 0.71 61.0 3.70e-01 100.0% 14.6%
5047074 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 0.71 59.0 3.64e-01 100.0% 15.1%
5057329 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.71 59.0 4.50e-01 100.0% 38.6%
3552520 241.15.1.3 a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › SPC25 0.70 61.0 5.89e-01 100.0% 90.8%
4025 150.5.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.70 59.0 5.05e-01 100.0% 60.6%
437078 3713.1.1.1 alpha bundles › Small terminase central domain › Small terminase central domain › Small terminase central domain › DNA_Packaging 0.70 59.0 5.19e-01 100.0% 67.0%