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JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00345

Bact-Vir

JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00345

Identity

Kingdom:
phage

Quality

88.2 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 133-204
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01844.30 best HNH 26.3 8.90e-06 59.7% 89.4%
D2 medium residues 7-58
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gdtB03 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.71 50.0 5.24e-01 86.5% 86.7%
1g2hA00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.68 54.0 5.25e-01 94.2% 80.3%
5fo5A00 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 51.0 4.32e-01 86.5% 68.2%
2ip2A01 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 48.0 4.19e-01 86.5% 53.6%
5y9sC01 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 47.0 4.17e-01 84.6% 72.0%
3fxqB01 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 48.0 4.11e-01 86.5% 66.7%
2hinA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.62 40.0 3.74e-01 75.0% 51.5%
2r0qC02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.62 48.0 4.77e-01 86.5% 87.3%
2imgA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.62 52.0 3.83e-01 100.0% 35.6%
2cfxA01 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 0.61 45.0 4.61e-01 86.5% 92.0%
1d8jA00 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 0.59 47.0 4.22e-01 94.2% 70.4%
1wxpA01 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.59 40.0 3.43e-01 71.2% 65.5%
4jykA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 48.0 4.74e-01 100.0% 96.6%
6v7xB02 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 0.59 44.0 4.36e-01 84.6% 87.5%
2hxoA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 46.0 4.44e-01 94.2% 84.1%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 50.0 4.40e-01 98.1% 83.1%
6el2B01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.58 45.0 4.63e-01 90.4% 100.0%
1k78A01 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 46.0 4.42e-01 100.0% 87.9%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 38.0 3.53e-01 80.8% 52.9%
1r71A01 1.10.10.730 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › KorB DNA-binding domain 0.57 44.0 4.37e-01 98.1% 85.7%
2rn7A01 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 0.57 44.0 4.21e-01 92.3% 78.8%
2x48A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.57 48.0 4.76e-01 96.2% 96.3%
2nyvA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 44.0 4.21e-01 94.2% 71.9%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.56 37.0 3.28e-01 75.0% 44.9%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.56 41.0 3.68e-01 80.8% 61.3%
4ex6A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.55 41.0 3.92e-01 88.5% 73.1%
3c2bA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.55 43.0 4.30e-01 94.2% 100.0%
1ywfA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.55 44.0 2.98e-01 100.0% 39.4%
1l0oC00 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 0.55 44.0 4.34e-01 96.2% 96.5%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.54 39.0 3.47e-01 80.8% 52.6%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.54 38.0 3.91e-01 80.8% 78.0%
2rklF00 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 0.54 40.0 4.00e-01 78.8% 80.8%
1wtyA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 40.0 3.30e-01 90.4% 68.1%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 44.0 3.32e-01 100.0% 87.5%
1ma1A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.51 36.0 3.41e-01 80.8% 60.9%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5042222 101.1.3.0 alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.83 59.0 4.95e-01 82.7% 45.9%
3584355 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.75 56.0 5.21e-01 86.5% 64.6%
4048964 2006.1.1.18 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 0.73 54.0 3.50e-01 78.8% 25.6%
1731538 101.1.1.25 alpha arrays › HTH › HTH › Three-helical HTH › DUF433 0.70 49.0 3.64e-01 90.4% 28.9%
4102570 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.69 53.0 5.42e-01 96.2% 92.0%
4970840 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.66 50.0 4.49e-01 84.6% 58.7%
3945660 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.63 48.0 4.19e-01 86.5% 72.9%
5053135 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.63 46.0 4.46e-01 86.5% 71.7%
3981547 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.62 47.0 3.99e-01 86.5% 63.2%
3933366 101.1.6.12 alpha arrays › HTH › HTH › TrpR › HTH_23 0.62 50.0 4.68e-01 100.0% 72.9%
4955713 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.61 45.0 4.31e-01 86.5% 66.2%
3394867 101.1.1.24 alpha arrays › HTH › HTH › Three-helical HTH › CENP-B_N 0.61 48.0 4.40e-01 100.0% 65.3%
3997733 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.60 46.0 4.41e-01 94.2% 70.8%
5056257 3236.1.1.1 alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › Na_H_Exchanger 0.60 50.0 3.06e-01 100.0% 18.2%
3977861 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.60 48.0 4.16e-01 90.4% 57.6%
3511835 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.60 51.0 4.60e-01 100.0% 74.7%
3928412 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.60 51.0 4.14e-01 100.0% 70.5%
3236790 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.60 50.0 4.07e-01 100.0% 84.5%
3504835 101.1.1.76 alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 0.57 47.0 3.86e-01 100.0% 61.8%
3633621 192.5.1.16 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › PF26729 0.57 46.0 4.03e-01 92.3% 100.0%
5054157 632.11.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DUF357 0.56 39.0 3.49e-01 80.8% 52.0%
3284944 191.1.1.0 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.55 45.0 3.41e-01 98.1% 60.7%
3996047 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.55 47.0 4.21e-01 100.0% 96.0%
4945267 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 0.54 38.0 3.43e-01 80.8% 52.0%
3810721 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.54 45.0 3.83e-01 100.0% 73.7%
4055608 3826.1.1.21 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › DUF986 0.53 43.0 3.94e-01 100.0% 92.0%
4055485 192.4.1.1 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.52 42.0 3.95e-01 100.0% 95.7%
4934026 192.4.1.1 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.51 42.0 3.97e-01 98.1% 98.5%
D3 medium residues 72-125
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2m8gX00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.81 60.0 5.48e-01 88.9% 61.4%
2p5kA00 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 0.69 55.0 5.27e-01 87.0% 87.3%
1a04A02 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 0.69 54.0 4.72e-01 85.2% 57.5%
6uglB02 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 50.0 4.97e-01 83.3% 77.6%
2iw5B00 1.20.58.1880 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 49.0 3.83e-01 87.0% 38.3%
2k9sA00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.65 50.0 4.09e-01 87.0% 46.7%
2fnaA03 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 49.0 4.52e-01 88.9% 74.0%
4ejoA00 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 53.0 4.26e-01 98.1% 50.0%
1lvaA04 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 48.0 4.73e-01 88.9% 81.7%
5y9sC01 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 4.33e-01 90.7% 62.2%
3dpuA03 1.10.10.2200 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.62 46.0 4.26e-01 85.2% 88.0%
5fo5A00 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 0.61 50.0 4.32e-01 94.4% 61.4%
2ip2A01 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 0.61 47.0 4.18e-01 88.9% 61.9%
1p4wA00 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 43.0 3.81e-01 81.5% 56.3%
6v7xB02 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 0.57 41.0 4.13e-01 81.5% 82.1%
1fnnB03 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 0.57 43.0 3.68e-01 90.7% 69.9%
2fq3A00 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 0.55 39.0 3.57e-01 83.3% 96.5%
1f5mA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.53 39.0 2.84e-01 83.3% 88.1%
4b3hA03 1.10.1040.50 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › 0.53 43.0 3.06e-01 100.0% 87.7%
1tltA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 41.0 3.25e-01 87.0% 53.4%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 42.0 3.29e-01 90.7% 83.6%
2ou3A01 1.10.3680.10 Mainly Alpha › Orthogonal Bundle › TerB-like › TerB-like 0.52 44.0 3.24e-01 98.1% 40.3%
2lfwA01 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.51 35.0 2.77e-01 75.9% 34.0%
1yixA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.50 42.0 2.77e-01 100.0% 44.5%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4984063 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.77 65.0 5.34e-01 92.6% 61.1%
4961280 101.1.2.939 alpha arrays › HTH › HTH › winged helix domain › PF26270 0.71 55.0 5.20e-01 87.0% 70.8%
5027452 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.69 53.0 3.94e-01 88.9% 33.5%
3483712 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.68 54.0 5.22e-01 87.0% 83.3%
5022000 101.1.2.195 alpha arrays › HTH › HTH › winged helix domain › Fic-like_C 0.67 56.0 4.89e-01 96.3% 68.2%
5010870 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.67 52.0 4.75e-01 88.9% 73.3%
4297073 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.66 53.0 4.52e-01 90.7% 55.6%
3973679 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.65 51.0 4.43e-01 87.0% 60.0%
3291169 101.1.1.2 alpha arrays › HTH › HTH › Three-helical HTH › HTH_AraC 0.64 50.0 5.03e-01 87.0% 94.5%
5009770 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.63 49.0 4.39e-01 88.9% 70.0%
5004890 101.1.2.195 alpha arrays › HTH › HTH › winged helix domain › Fic-like_C 0.63 49.0 4.48e-01 92.6% 71.2%
3173749 101.1.1.3 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.63 46.0 3.97e-01 83.3% 53.7%
5011846 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.62 48.0 4.52e-01 88.9% 80.0%
3785701 101.1.2.361 alpha arrays › HTH › HTH › winged helix domain › Myb_DNA-binding 0.62 47.0 4.32e-01 85.2% 68.0%
3975780 101.1.2.1 alpha arrays › HTH › HTH › winged helix domain › HTH_1 0.62 51.0 4.37e-01 94.4% 60.0%
5079193 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.62 49.0 3.95e-01 92.6% 46.7%
5066355 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.59 44.0 3.84e-01 85.2% 67.8%
5014345 101.1.2.554 alpha arrays › HTH › HTH › winged helix domain › PF30184 0.58 46.0 3.94e-01 88.9% 75.6%
3787860 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.56 40.0 3.92e-01 83.3% 75.4%
3737690 592.1.1.0 alpha arrays › PWI domain-like › PWI domain › PWI domain 0.53 39.0 3.22e-01 81.5% 62.9%
3480380 592.1.1.0 alpha arrays › PWI domain-like › PWI domain › PWI domain 0.52 38.0 3.15e-01 83.3% 61.8%