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S2_009_000_R2_scaffold_4_prodigal-single.1__X__X__00233

Bact-Vir

S2_009_000_R2_scaffold_4_prodigal-single.1__X__X__00233

Identity

Kingdom:
phage

Quality

65.6 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 1-56
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.92 77.0 8.00e-01 89.3% 98.0%
4di1C02 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 0.91 64.0 7.28e-01 73.2% 100.0%
3qwwA03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.86 61.0 4.10e-01 76.8% 22.0%
4jvtA02 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 0.86 60.0 6.67e-01 73.2% 100.0%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.82 66.0 6.65e-01 87.5% 93.0%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.81 70.0 5.24e-01 94.6% 41.4%
4jfcA02 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 0.80 57.0 5.76e-01 75.0% 75.0%
2xv4S03 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 55.0 4.62e-01 75.0% 44.6%
1jxzC02 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 0.79 57.0 5.59e-01 80.4% 71.7%
5lbmA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.78 68.0 5.98e-01 98.2% 68.7%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.78 67.0 4.48e-01 100.0% 33.2%
3hpcX00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.78 69.0 5.01e-01 100.0% 72.9%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.78 58.0 5.20e-01 80.4% 57.9%
4jcsA02 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 0.78 54.0 5.26e-01 87.5% 66.1%
2dnxA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 65.0 4.93e-01 100.0% 40.0%
7metA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.77 68.0 4.25e-01 100.0% 43.7%
4mi2A02 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 0.77 54.0 5.37e-01 87.5% 70.7%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.76 66.0 5.61e-01 96.4% 73.3%
3hinA02 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 0.76 54.0 5.47e-01 76.8% 76.4%
4jylA02 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 0.75 53.0 5.64e-01 76.8% 85.7%
4fzwA02 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 0.75 53.0 5.29e-01 75.0% 72.4%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.75 63.0 5.49e-01 100.0% 62.1%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 66.0 6.20e-01 98.2% 82.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.74 60.0 5.96e-01 89.3% 84.5%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.74 66.0 4.99e-01 100.0% 43.8%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.73 59.0 5.01e-01 91.1% 53.8%
2ig3A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.73 59.0 4.52e-01 94.6% 39.4%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.73 47.0 5.03e-01 85.7% 77.1%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.72 61.0 5.65e-01 96.4% 73.2%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.72 62.0 5.00e-01 100.0% 92.2%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 63.0 6.16e-01 98.2% 93.5%
5z7rA02 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 0.71 50.0 5.19e-01 76.8% 80.8%
1z5zA02 1.20.120.850 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SWI2/SNF2 ATPases, N-terminal domain 0.71 57.0 5.14e-01 91.1% 64.5%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.71 60.0 5.25e-01 96.4% 70.6%
1dciA02 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 0.70 48.0 4.69e-01 73.2% 63.5%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.70 52.0 4.55e-01 80.4% 52.9%
3rlfF01 1.20.58.370 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › MalF N-terminal region-like 0.70 59.0 5.16e-01 96.4% 66.3%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.70 52.0 5.59e-01 78.6% 97.8%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 58.0 5.01e-01 100.0% 62.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.70 61.0 4.75e-01 100.0% 89.5%
3vurA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.70 47.0 3.71e-01 71.4% 34.5%
2ca5A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 60.0 5.81e-01 96.4% 88.7%
4rflA02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.69 50.0 3.54e-01 82.1% 23.6%
3besR03 6.10.140.1480 Special › Helix non-globular › Helix Hairpins › 0.69 51.0 5.15e-01 91.1% 83.9%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 55.0 5.02e-01 98.2% 65.4%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.68 52.0 5.41e-01 82.1% 92.2%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 59.0 5.53e-01 100.0% 77.5%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 54.0 5.36e-01 89.3% 84.5%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 58.0 5.29e-01 98.2% 75.3%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.67 50.0 4.54e-01 87.5% 59.2%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.67 52.0 5.23e-01 96.4% 88.1%
2qvaA02 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 0.66 48.0 4.93e-01 78.6% 83.0%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.66 51.0 4.97e-01 96.4% 79.4%
1tmxB00 2.60.130.10 Mainly Beta › Sandwich › Protocatechuate 3,4-Dioxygenase, subunit A › Aromatic compound dioxygenase 0.63 47.0 3.06e-01 85.7% 17.1%
1qguB04 1.20.89.10 Mainly Alpha › Up-down Bundle › Nitrogenase Molybdenum-iron Protein, subunit B; domain 4 › Nitrogenase Molybdenum-iron Protein, subunit B, domain 4 0.62 48.0 4.34e-01 89.3% 81.9%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4831662 5043.1.1.1 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like › Htr2 0.91 80.0 7.49e-01 94.6% 80.3%
3952510 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.87 74.0 6.69e-01 100.0% 69.3%
5031927 5057.1.1.0 ↗ alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore 0.86 73.0 6.31e-01 92.9% 61.2%
3414990 109.4.1.162 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nup192 0.86 78.0 4.10e-01 100.0% 3.9%
3180974 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.85 65.0 6.61e-01 89.3% 83.6%
3199952 5000.4.1.0 ↗ alpha arrays › Toxins' membrane translocation domains › delta-Endotoxin (insectocide), N-terminal domain › delta-Endotoxin (insectocide), N-terminal domain 0.84 75.0 5.14e-01 100.0% 29.5%
3267769 192.15.1.107 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Med14 0.84 74.0 6.22e-01 100.0% 58.9%
3257705 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.83 74.0 6.14e-01 100.0% 57.9%
5064797 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.83 74.0 4.89e-01 100.0% 25.5%
3506234 5043.1.1.15 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like › Med14 0.82 74.0 5.95e-01 100.0% 55.2%
3628140 3826.1.1.43 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Med14 0.82 74.0 5.86e-01 100.0% 52.7%
1030831 5094.1.1.1 ↗ a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › OmpH 0.82 75.0 5.25e-01 100.0% 34.1%
3548646 604.6.1.52 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › Med14 0.81 73.0 5.97e-01 100.0% 58.0%
3401272 174.1.1.29 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF4728 0.81 73.0 5.10e-01 100.0% 40.0%
3909706 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.80 67.0 5.93e-01 96.4% 68.2%
3417201 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.80 72.0 5.03e-01 100.0% 32.0%
5055566 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 0.79 71.0 5.48e-01 96.4% 47.8%
3487203 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.79 58.0 4.94e-01 76.8% 57.6%
3784740 3712.1.1.1 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Med11 0.79 70.0 6.35e-01 98.2% 73.3%
3992452 150.5.1.74 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › CUX1_N 0.79 70.0 6.19e-01 100.0% 75.0%
3963152 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.78 67.0 4.11e-01 100.0% 17.1%
3848250 605.1.1.325 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › CCDC28 0.78 68.0 6.04e-01 98.2% 81.2%
3879791 378.1.1.0 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases 0.77 63.0 4.23e-01 94.6% 23.6%
3990688 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.77 67.0 5.68e-01 100.0% 70.5%
4075707 3711.1.1.0 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.76 64.0 5.53e-01 100.0% 61.1%
3280086 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.76 67.0 4.60e-01 96.4% 30.6%
3257074 4177.1.1.1 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.76 67.0 4.16e-01 96.4% 19.0%
3448294 3826.1.1.33 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › eIF-4B 0.75 66.0 5.72e-01 96.4% 75.3%
3274476 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.74 54.0 5.35e-01 78.6% 73.3%
3527434 6006.1.1.6 ↗ extended segments › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › PF27661 0.74 63.0 4.61e-01 96.4% 35.5%
4115372 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.73 61.0 4.90e-01 96.4% 47.3%
3989094 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 0.73 58.0 5.45e-01 96.4% 70.0%
1068646 3711.1.1.2 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DUF3826 0.73 61.0 4.23e-01 100.0% 27.5%
4674 192.7.1.1 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.73 65.0 6.20e-01 100.0% 90.8%
3963355 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 0.73 64.0 5.82e-01 98.2% 73.3%
3492279 4006.1.1.0 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain 0.73 61.0 4.88e-01 94.6% 47.0%
4950292 150.5.1.126 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › HisKA 0.69 61.0 5.37e-01 100.0% 69.9%
5066732 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.69 60.0 4.01e-01 100.0% 23.8%
7521 323.1.1.6 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Carn_acyltransf 0.69 53.0 3.16e-01 83.9% 12.0%
3760483 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.69 59.0 4.17e-01 100.0% 30.5%
3461932 3922.1.1.189 ↗ 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 › DUF630 0.64 54.0 4.67e-01 100.0% 61.1%