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SRR1747030_scaffold_3_prodigal-single.1__X__X__00118

Bact-Vir

SRR1747030_scaffold_3_prodigal-single.1__X__X__00118

Identity

Kingdom:
phage

Quality

72.7 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 1-48
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.88 80.0 7.14e-01 100.0% 72.7%
1iipA02 1.10.150.160 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.88 78.0 6.37e-01 97.9% 55.3%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.86 75.0 5.25e-01 100.0% 32.5%
2yqyA00 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.84 75.0 5.45e-01 100.0% 66.7%
2v0cA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.83 71.0 4.94e-01 100.0% 29.6%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.83 73.0 5.42e-01 100.0% 40.5%
6h5hA00 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.82 68.0 5.90e-01 100.0% 60.6%
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 0.81 67.0 6.57e-01 93.8% 84.6%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.81 70.0 6.14e-01 100.0% 70.3%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.80 66.0 6.51e-01 93.8% 86.0%
4i1aA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.80 64.0 3.93e-01 93.8% 15.3%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.80 70.0 5.45e-01 100.0% 58.7%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.80 69.0 4.93e-01 97.9% 34.8%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.80 69.0 5.00e-01 100.0% 48.5%
1w99A01 1.20.190.10 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain 0.79 67.0 4.61e-01 100.0% 28.3%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.79 69.0 5.37e-01 100.0% 46.7%
1lkoA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 70.0 4.93e-01 100.0% 33.1%
1jgcA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 70.0 4.80e-01 100.0% 68.1%
3pwfA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 68.0 5.01e-01 100.0% 38.2%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 67.0 6.10e-01 95.8% 92.2%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.77 65.0 5.61e-01 95.8% 61.8%
2pihA00 1.20.1500.10 Mainly Alpha › Up-down Bundle › YheA-like fold › YheA/YmcA-like 0.77 68.0 5.05e-01 100.0% 39.0%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.77 65.0 6.43e-01 97.9% 90.2%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 67.0 4.57e-01 100.0% 28.6%
8fbnB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.76 65.0 4.21e-01 97.9% 20.7%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.76 65.0 5.65e-01 100.0% 70.1%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 66.0 6.11e-01 100.0% 93.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.76 67.0 4.92e-01 100.0% 41.1%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.76 64.0 6.24e-01 93.8% 88.5%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.75 65.0 5.62e-01 100.0% 63.2%
4cybD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 66.0 4.48e-01 100.0% 28.1%
1tqgA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.75 67.0 5.15e-01 100.0% 49.5%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 65.0 6.12e-01 100.0% 84.5%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 65.0 5.64e-01 100.0% 64.0%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.74 61.0 5.25e-01 95.8% 58.4%
1dd3A01 1.20.5.710 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.74 54.0 5.18e-01 81.2% 75.4%
3a8pA02 6.10.140.680 Special › Helix non-globular › Helix Hairpins › 0.74 63.0 4.84e-01 100.0% 45.6%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.73 63.0 4.63e-01 97.9% 40.8%
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 0.72 61.0 6.11e-01 100.0% 97.9%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.71 61.0 4.40e-01 100.0% 73.3%
8igrI01 2.40.270.10 Mainly Beta › Beta Barrel › Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; Domain 6 › DNA-directed RNA polymerase, subunit 2, domain 6 0.71 61.0 4.21e-01 100.0% 30.7%
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 0.71 61.0 5.93e-01 97.9% 88.7%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.70 62.0 5.05e-01 100.0% 72.2%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.69 59.0 5.37e-01 100.0% 86.4%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 58.0 5.53e-01 97.9% 98.3%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.67 58.0 4.71e-01 97.9% 53.8%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 57.0 4.58e-01 100.0% 53.1%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.66 56.0 5.12e-01 100.0% 97.0%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 54.0 4.60e-01 93.8% 57.1%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 56.0 4.96e-01 100.0% 70.4%
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 0.64 45.0 3.96e-01 81.2% 47.0%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.64 54.0 4.87e-01 100.0% 68.6%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 51.0 4.61e-01 100.0% 71.2%
1m56C01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 54.0 4.77e-01 100.0% 68.1%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.58 47.0 4.00e-01 97.9% 56.0%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4937579 601.18.1.31 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › DUF2178 0.95 89.0 6.34e-01 100.0% 39.2%
5057042 605.1.1.355 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › RDD 0.89 81.0 5.72e-01 100.0% 65.2%
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 0.88 78.0 6.43e-01 100.0% 58.8%
3977054 4274.1.1.1 ↗ extended segments › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › MalF_N_TM 0.86 77.0 7.35e-01 100.0% 87.3%
4955275 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.82 71.0 5.78e-01 100.0% 52.2%
5060141 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.81 68.0 6.01e-01 100.0% 65.2%
5058368 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.80 69.0 5.65e-01 100.0% 52.8%
3235853 632.6.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit 0.79 68.0 5.84e-01 100.0% 60.0%
4993041 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.79 69.0 5.87e-01 100.0% 62.5%
3739042 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.78 66.0 4.11e-01 100.0% 32.0%
4956241 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.78 68.0 5.79e-01 95.8% 61.3%
4140504 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.77 68.0 5.43e-01 100.0% 53.7%
4086402 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.77 67.0 5.60e-01 100.0% 58.8%
4384750 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.75 67.0 5.31e-01 100.0% 64.2%
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 0.75 64.0 5.20e-01 100.0% 56.8%
3952510 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.75 63.0 5.49e-01 95.8% 100.0%
4018440 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.74 65.0 5.22e-01 100.0% 93.7%
3963155 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 0.74 63.0 5.53e-01 100.0% 74.7%
4133341 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.74 65.0 4.86e-01 100.0% 40.0%
3228061 1147.1.1.1 ↗ alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL 0.74 63.0 4.71e-01 100.0% 37.5%
4993195 632.6.1.15 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › PF26119 0.73 62.0 5.05e-01 100.0% 50.5%
3487203 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.72 63.0 5.25e-01 100.0% 60.0%
3514777 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.72 60.0 4.43e-01 100.0% 41.4%
4177393 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.72 62.0 4.45e-01 100.0% 35.9%
3401214 3755.3.1.345 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Hobbit 0.72 62.0 4.45e-01 100.0% 33.1%
4674 192.7.1.1 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.72 62.0 5.68e-01 100.0% 75.4%
4013663 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.71 58.0 4.23e-01 100.0% 31.0%
3235297 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.71 63.0 4.21e-01 100.0% 27.6%
3884327 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.71 61.0 5.02e-01 100.0% 70.0%
5039785 632.22.1.200 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › PF26119 0.71 62.0 4.97e-01 100.0% 67.0%
3484950 605.8.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like 0.70 58.0 6.00e-01 95.8% 100.0%
4031046 192.7.1.1 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.70 61.0 5.67e-01 100.0% 81.7%
3987802 192.7.1.1 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.69 61.0 5.69e-01 100.0% 81.7%
3672772 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.69 58.0 5.13e-01 93.8% 77.1%
3596737 604.8.1.0 ↗ alpha bundles › Spectrin repeat-like › Smac/diablo › Smac/diablo 0.69 57.0 4.14e-01 91.7% 56.9%
3462297 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 59.0 5.16e-01 100.0% 64.0%
4286656 140.1.1.11 ↗ 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_1 0.67 54.0 4.32e-01 100.0% 42.7%
3613914 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 0.67 57.0 5.03e-01 100.0% 68.0%
4846660 192.18.1.1 ↗ alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like › T3SS_needle_F 0.67 56.0 4.98e-01 100.0% 70.3%
3189035 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.66 54.0 4.85e-01 100.0% 73.3%
3469701 3755.1.1.0 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.65 54.0 3.58e-01 100.0% 22.8%
3242392 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.63 52.0 4.66e-01 95.8% 68.6%