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S2_012_000_R2_scaffold_0_prodigal-single.1__X__X__01074

Bact-Vir

S2_012_000_R2_scaffold_0_prodigal-single.1__X__X__01074

Identity

Kingdom:
phage

Quality

84.2 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 10-87
PDB
Domain cluster: representative
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2vmaA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.86 76.0 6.40e-01 100.0% 59.8%
2whnA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.82 74.0 6.50e-01 100.0% 68.2%
4hhxA00 1.20.81.30 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › Type II secretion system (T2SS), domain F 0.81 70.0 6.33e-01 100.0% 70.2%
1sxjE03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.66 52.0 4.90e-01 87.2% 77.3%
1qdmA03 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.63 52.0 5.31e-01 98.7% 92.2%
3iqtA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.62 54.0 4.77e-01 94.9% 85.1%
4lqkA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.60 46.0 3.97e-01 84.6% 54.5%
1xqoA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.59 48.0 4.13e-01 93.6% 66.7%
2uyyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.58 47.0 4.09e-01 91.0% 86.2%
5af7A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.57 48.0 4.37e-01 94.9% 73.6%
2is6A04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.57 46.0 3.75e-01 92.3% 99.4%
2qsbA00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.57 41.0 4.01e-01 76.9% 80.0%
1ngnA00 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.55 44.0 3.72e-01 92.3% 67.4%
2r7rA03 1.10.10.1990 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Viral RNA-directed RNA polymerase, 4-helical domain 0.54 40.0 4.12e-01 89.7% 84.2%
2d2sA02 1.20.58.1220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, C-terminal helical domain 0.54 38.0 3.56e-01 79.5% 57.4%
4hwdD00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.54 38.0 3.67e-01 74.4% 85.6%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.53 45.0 4.26e-01 96.2% 77.3%
1f7cA00 1.10.555.10 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase; Chain A › Rho GTPase activation protein 0.53 43.0 3.50e-01 100.0% 46.2%
2p0tA02 1.10.60.30 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › PSPTO4464-like domains 0.52 37.0 3.83e-01 85.9% 84.7%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.52 38.0 3.84e-01 80.8% 89.3%
4agsB04 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.51 39.0 3.29e-01 82.1% 65.4%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3165055 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.85 73.0 6.28e-01 93.6% 61.7%
1042015 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.82 74.0 6.50e-01 100.0% 68.2%
3969017 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.78 69.0 5.73e-01 94.9% 57.7%
5009373 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.76 61.0 5.28e-01 87.2% 60.0%
5028871 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.74 65.0 5.36e-01 96.2% 57.8%
3603565 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.74 66.0 5.39e-01 100.0% 64.8%
4979419 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.73 59.0 5.06e-01 87.2% 60.0%
3607359 103.2.1.1 alpha arrays › RuvA-C › ATP cone › ATP cone › Ribonuc_red_lgN 0.72 55.0 4.00e-01 83.3% 30.7%
5066094 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.72 65.0 5.53e-01 100.0% 68.8%
5066095 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.70 63.0 5.15e-01 100.0% 62.9%
4962832 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.70 61.0 5.36e-01 100.0% 70.0%
5056582 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.70 62.0 5.06e-01 100.0% 57.2%
4964085 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.70 60.0 5.07e-01 96.2% 60.0%
5007096 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.69 61.0 5.20e-01 100.0% 63.8%
5021617 5060.2.1.0 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain 0.68 60.0 4.89e-01 100.0% 64.0%
3988184 138.1.1.0 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.66 55.0 5.30e-01 91.0% 83.3%
3449672 138.1.1.2 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › Rep_fac_C 0.65 51.0 4.85e-01 87.2% 78.9%
3708550 1056.1.1.0 a+b two layers › tRNA pseudouridine synthase TruD insertion domain › tRNA pseudouridine synthase TruD insertion domain › tRNA pseudouridine synthase TruD insertion domain 0.62 52.0 3.68e-01 93.6% 34.4%
3834034 5067.1.1.13 alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › ALMT 0.61 53.0 4.24e-01 100.0% 63.0%
4239098 140.1.1.5 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 › Anticodon_1 0.59 52.0 4.10e-01 98.7% 62.4%
3257941 189.1.1.2 alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP › RhoGAP 0.58 50.0 3.76e-01 100.0% 81.5%
3264196 5067.1.1.13 alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › ALMT 0.56 46.0 3.78e-01 98.7% 63.0%
3258160 189.1.1.2 alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP › RhoGAP 0.56 46.0 3.63e-01 100.0% 89.7%
2875223 138.1.1.0 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.55 42.0 4.05e-01 87.2% 81.9%
D2 medium residues 88-361
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1r0dA00 1.20.1410.10 Mainly Alpha › Up-down Bundle › I/LWEQ domain › I/LWEQ domain 0.68 34.0 4.08e-01 88.0% 67.9%
2oexA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.68 37.0 4.99e-01 89.4% 100.0%
4an8A02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.68 29.0 4.20e-01 88.0% 86.1%
4jioA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.63 38.0 4.83e-01 93.4% 100.0%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 31.0 4.13e-01 72.6% 86.2%
6h2dS01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.61 30.0 3.38e-01 72.6% 59.6%
1o5hA00 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.60 28.0 3.28e-01 83.6% 57.5%
1fntc01 1.20.120.180 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Proteasome activator pa28, C-terminal domain 0.60 32.0 3.76e-01 88.3% 71.8%
1oahA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 29.0 3.95e-01 90.5% 89.4%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.58 24.0 3.09e-01 70.8% 62.7%
2wbiB03 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 29.0 3.79e-01 90.5% 83.5%
2b5uA02 1.10.287.620 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix Hairpins 0.57 28.0 3.60e-01 73.0% 79.5%
6q45G01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.55 29.0 4.04e-01 72.3% 98.6%
2d1lA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.54 43.0 4.49e-01 89.8% 89.2%
2ficB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.54 39.0 4.44e-01 92.3% 100.0%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.53 26.0 3.87e-01 87.2% 100.0%
3tulB00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 25.0 3.59e-01 80.7% 92.5%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.53 38.0 4.36e-01 89.8% 96.2%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.53 38.0 4.35e-01 93.1% 99.5%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.52 40.0 4.37e-01 88.7% 93.9%
3g67A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.52 32.0 3.65e-01 73.7% 77.5%
7metA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.52 34.0 3.28e-01 96.4% 55.3%
3ok8A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.52 40.0 4.39e-01 93.4% 99.5%
1i4dA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.52 35.0 4.19e-01 89.1% 100.0%
1uruA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.51 38.0 4.23e-01 93.1% 98.6%
3zciA00 1.20.58.1660 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 32.0 3.80e-01 97.1% 89.5%
4nswB01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.51 38.0 3.97e-01 92.0% 81.2%
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 0.51 39.0 4.18e-01 93.8% 93.1%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.51 36.0 3.41e-01 71.2% 96.4%
3qa8A04 1.20.1270.250 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.51 40.0 4.28e-01 96.0% 94.8%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3947819 5060.2.1.1 alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.79 47.0 6.05e-01 72.6% 100.0%
3774121 150.1.1.119 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Clusterin 0.65 29.0 3.80e-01 98.2% 70.6%
4028552 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.63 29.0 3.07e-01 72.6% 48.2%
5072700 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.62 44.0 4.48e-01 93.8% 71.9%
3538954 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.60 30.0 3.00e-01 72.6% 46.8%
2326778 601.15.1.1 alpha bundles › Four-helical up-and-down bundle › Proteasome activator reg(alpha) › Proteasome activator reg(alpha) › PA28_N,PA28_C 0.58 34.0 3.86e-01 93.8% 73.5%
4950734 3755.3.1.637 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.56 30.0 3.67e-01 72.6% 77.9%
3911997 4177.1.1.4 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › IMD 0.53 41.0 4.22e-01 90.9% 83.4%
3577239 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.52 41.0 4.35e-01 95.6% 90.4%
4422553 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.52 39.0 2.97e-01 91.2% 33.1%
3189247 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.51 39.0 4.19e-01 88.3% 90.6%
3831567 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.51 27.0 3.47e-01 72.6% 84.1%
3953720 5086.1.1.221 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › MMPL 0.50 31.0 3.67e-01 72.6% 85.0%