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NC_008464.1__YP_794053.1__Stx2-86_gp06__00006

Bact-Vir

NC_008464.1__YP_794053.1__Stx2-86_gp06__00006

Identity

Accession:
NC_008464 ↗
Kingdom:
phage

Quality

94.0 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 1-102
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ezhA00 1.20.120.960 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase NarX, sensor domain 0.67 43.0 4.18e-01 90.2% 58.8%
1v9mA03 1.20.1690.10 Mainly Alpha › Up-down Bundle › V-type ATP synthase subunit C fold › V-type ATP synthase subunit C domain 0.65 35.0 3.69e-01 100.0% 56.2%
1yozA00 1.10.3200.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › AF0941-like 0.65 47.0 4.58e-01 97.1% 68.1%
2yvyA01 1.25.60.10 Mainly Alpha › Alpha Horseshoe › MgtE N-terminal fold › MgtE N-terminal domain-like 0.65 33.0 3.12e-01 81.4% 39.2%
1xl3C00 1.20.1280.80 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.65 42.0 4.43e-01 94.1% 73.6%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 53.0 5.34e-01 100.0% 91.1%
3ls1A00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.61 40.0 3.73e-01 84.3% 51.9%
6cgvM01 1.20.120.1500 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pre-hexon-linking protein IIIa 0.60 32.0 2.89e-01 77.5% 38.1%
1j1jA02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.60 40.0 4.27e-01 91.2% 81.2%
5c4yA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 44.0 4.04e-01 97.1% 60.3%
1gcvB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 52.0 4.71e-01 97.1% 94.1%
3efzB00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.58 48.0 3.74e-01 89.2% 96.9%
1oj6A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 51.0 4.54e-01 97.1% 96.6%
3sk9A00 1.10.3210.30 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › 0.58 46.0 3.56e-01 85.3% 50.9%
3ubcA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 51.0 4.73e-01 97.1% 96.2%
1urvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 51.0 4.44e-01 97.1% 93.5%
1f16A00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.57 38.0 3.09e-01 96.1% 35.9%
2n3eA01 1.10.274.70 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, N-terminal domain 0.57 48.0 4.66e-01 95.1% 95.7%
2etdA00 1.20.1440.20 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › LemA-like domain 0.57 48.0 4.29e-01 91.2% 67.4%
3swhA01 1.10.357.50 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.56 46.0 3.98e-01 100.0% 55.8%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.56 33.0 3.52e-01 80.4% 65.9%
4hwhE00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.56 41.0 4.35e-01 94.1% 89.8%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.56 40.0 3.73e-01 86.3% 59.2%
2c0uA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.56 47.0 4.00e-01 93.1% 78.1%
2mx8A01 1.10.274.70 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, N-terminal domain 0.55 46.0 4.51e-01 94.1% 100.0%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 47.0 4.72e-01 94.1% 91.2%
3qc1A01 1.25.40.540 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family 0.55 37.0 3.30e-01 84.3% 47.0%
1dk5A02 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.55 35.0 4.11e-01 83.3% 93.1%
1k32A03 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.54 36.0 4.18e-01 90.2% 97.2%
3jsbA01 1.20.1440.300 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › RNA-directed RNA polymerase L, helical domain 0.54 38.0 4.12e-01 88.2% 91.4%
4an8A02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.54 45.0 4.23e-01 90.2% 92.6%
5wp3B00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.54 44.0 4.41e-01 95.1% 88.2%
1sigA00 1.10.601.10 Mainly Alpha › Orthogonal Bundle › RNA Polymerase Primary Sigma Factor › RNA Polymerase Primary Sigma Factor 0.53 43.0 3.03e-01 94.1% 28.5%
6lcuA02 1.10.10.470 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Maltooligosyl trehalose synthase; domain 4 0.53 39.0 3.87e-01 76.5% 81.9%
8ab6B02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.53 47.0 3.84e-01 97.1% 82.2%
1lkvX02 1.10.220.30 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Flagellar motor switch protein FliG, alpha-alpha superhelical domain 0.53 40.0 3.71e-01 80.4% 63.6%
3pe0A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 42.0 4.18e-01 90.2% 82.1%
5nl6A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 41.0 4.11e-01 90.2% 79.6%
1binA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 45.0 4.10e-01 98.0% 95.8%
2a07J00 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 0.52 32.0 3.50e-01 94.1% 74.7%
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.52 47.0 4.61e-01 100.0% 93.8%
3gykB00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 37.0 3.21e-01 75.5% 67.6%
1hbgA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 45.0 4.02e-01 97.1% 87.8%
7wu8B01 1.20.1160.20 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › 0.52 38.0 4.18e-01 83.3% 98.7%
1vw4L02 1.10.246.170 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.52 37.0 4.01e-01 81.4% 90.6%
4l7mA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.52 36.0 2.74e-01 72.5% 41.8%
4ie5A02 1.20.58.1470 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › FTO C-terminal domain 0.51 36.0 3.33e-01 71.6% 90.3%
1n00A01 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.51 35.0 3.89e-01 78.4% 86.9%
2w2dD01 1.20.1120.10 Mainly Alpha › Up-down Bundle › "Clostridium botulinum neurotoxin B, ""coiled-coil"" domain" › "Clostridium botulinum neurotoxin b, ""coiled-coil"" domain" 0.51 45.0 3.01e-01 100.0% 44.2%
1xvpB00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.50 44.0 3.38e-01 100.0% 45.9%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4095580 604.34.1.1 alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.63 43.0 4.42e-01 97.1% 74.7%
3202098 633.6.1.0 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.63 54.0 4.62e-01 91.2% 99.4%
5001551 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.62 58.0 4.82e-01 100.0% 63.6%
3587787 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.61 46.0 3.75e-01 78.4% 87.6%
3677344 3745.1.1.1 alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.61 42.0 2.87e-01 72.5% 73.3%
3593398 5059.1.1.0 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter 0.60 35.0 3.43e-01 90.2% 50.4%
1680017 592.3.1.1 alpha arrays › PWI domain-like › N-terminal domain of egg case silk protein TuSp1 › N-terminal domain of egg case silk protein TuSp1 › Spidroin_N 0.60 53.0 4.88e-01 100.0% 91.7%
3701078 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.59 51.0 4.64e-01 93.1% 80.7%
4253649 601.4.1.1 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › TarH 0.59 44.0 3.98e-01 87.3% 57.9%
3606543 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.58 48.0 4.79e-01 97.1% 85.7%
3289514 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.57 52.0 3.80e-01 99.0% 45.6%
3587161 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 0.57 40.0 3.63e-01 95.1% 53.6%
5080854 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.57 51.0 4.22e-01 99.0% 63.9%
3962159 1075.5.1.2 alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MurJ 0.56 51.0 4.38e-01 100.0% 69.4%
3785344 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.56 46.0 4.34e-01 86.3% 72.5%
3395101 309.1.1.8 a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_M 0.56 50.0 3.80e-01 100.0% 92.9%
4084556 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.55 50.0 4.76e-01 99.0% 93.3%
3844081 4133.1.1.1 alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › ENT 0.55 38.0 4.00e-01 72.5% 93.7%
5002999 101.11.1.0 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.55 40.0 4.33e-01 100.0% 97.5%
4290988 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.55 49.0 4.12e-01 98.0% 62.4%
4386513 1075.1.1.19 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_4 0.54 48.0 3.73e-01 99.0% 73.3%
3563871 603.1.1.121 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF30821 0.54 45.0 4.36e-01 93.1% 80.9%
4241236 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.54 39.0 4.28e-01 95.1% 98.8%
3938097 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.54 41.0 4.00e-01 100.0% 73.0%
5001458 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.53 47.0 3.90e-01 100.0% 62.1%
4012786 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 40.0 4.20e-01 81.4% 94.7%
3285329 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.53 45.0 3.61e-01 92.2% 62.6%
4218089 1056.1.1.1 a+b two layers › tRNA pseudouridine synthase TruD insertion domain › tRNA pseudouridine synthase TruD insertion domain › tRNA pseudouridine synthase TruD insertion domain › TruD 0.52 45.0 3.63e-01 98.0% 50.0%
3595973 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 45.0 3.46e-01 97.1% 82.0%
3496154 5051.1.1.6 alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Aa_trans 0.52 43.0 2.96e-01 93.1% 58.0%
3592211 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.52 42.0 4.16e-01 94.1% 82.7%
4452391 604.39.1.5 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › ECF_trnsprt 0.52 41.0 3.32e-01 86.3% 100.0%
3318507 109.4.1.883 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.52 42.0 3.19e-01 94.1% 37.9%
None 0.52 46.0 3.76e-01 100.0% 60.5%
3939708 601.24.1.0 alpha bundles › Four-helical up-and-down bundle › FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) › FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) 0.52 38.0 3.73e-01 100.0% 71.8%
4027360 603.2.1.0 alpha bundles › STAT-like › STAT › STAT 0.51 45.0 3.32e-01 96.1% 39.6%
3702176 603.1.1.100 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27017 0.51 42.0 3.84e-01 90.2% 77.9%
3598771 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 47.0 3.07e-01 100.0% 52.3%
4497185 185.1.1.1 alpha superhelices › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin/Protein HNS-dependent expression A HdeA › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin › Tryp_alpha_amyl 0.51 40.0 3.85e-01 85.3% 79.2%
3367930 1002.1.1.1 alpha complex topology › Fluoride ion channel › Fluoride ion channel › Fluoride ion channel › CRCB 0.51 41.0 3.63e-01 99.0% 58.1%
3347110 3684.1.1.2 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1 0.50 45.0 3.43e-01 100.0% 78.6%
3884664 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.50 42.0 3.70e-01 91.2% 70.0%