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aot2015-NO08_SRR1761682_USA_scaffold_4_curated_prodigal-single.1__X__X__00049

Bact-Vir

aot2015-NO08_SRR1761682_USA_scaffold_4_curated_prodigal-single.1__X__X__00049

Identity

Kingdom:
phage

Quality

79.9 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 17-189
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2k4vA00 3.30.160.370 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Domain of unknown function DUF5064 0.58 35.0 4.08e-01 100.0% 82.4%
4csbA00 2.40.128.480 Mainly Beta › Beta Barrel › Lipocalin › Rhodococcus equi virulence-associated protein 0.56 33.0 3.97e-01 89.0% 86.7%
2kigA00 2.30.29.110 Mainly Beta › Roll › PH-domain like › 0.55 36.0 3.80e-01 97.7% 71.4%
5a67A00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.54 33.0 3.13e-01 94.8% 49.0%
4l8hB00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.53 28.0 3.30e-01 84.4% 70.7%
1of5B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 29.0 3.27e-01 74.0% 71.1%
4r7kA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 36.0 3.67e-01 90.2% 73.8%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.51 33.0 3.51e-01 86.7% 72.5%
4akrA02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.50 31.0 3.36e-01 86.7% 71.4%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3250629 4210.1.1.1 ↗ a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.65 33.0 4.27e-01 93.1% 82.9%
3474420 220.1.1.123 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_SSH1-like_1st 0.61 37.0 3.99e-01 100.0% 69.3%
3417002 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.56 33.0 3.80e-01 78.0% 80.8%
3481772 331.9.1.4 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › Coatomer_g_Cpla 0.54 31.0 3.59e-01 83.8% 77.2%
3325019 243.3.1.12 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › SQAPI 0.52 30.0 3.87e-01 80.3% 98.0%
3830041 243.1.1.2 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › NTF2 0.52 27.0 3.11e-01 71.7% 66.2%
4978072 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.51 27.0 3.22e-01 86.7% 76.4%
3470047 243.1.1.2 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › NTF2 0.51 25.0 3.50e-01 71.1% 96.5%
3247589 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.50 27.0 3.03e-01 73.4% 66.2%
D2 high residues 234-317
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2j7vB01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.61 44.0 3.12e-01 77.4% 99.2%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.61 45.0 3.86e-01 78.6% 73.7%
1repC02 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 45.0 4.45e-01 79.8% 93.4%
1tu1A00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.59 48.0 4.07e-01 89.3% 72.2%
4w6yA00 2.60.120.1210 Mainly Beta › Sandwich › Jelly Rolls › 0.58 51.0 4.28e-01 98.8% 100.0%
4frwA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 46.0 4.41e-01 85.7% 95.8%
4ewfA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.58 42.0 2.97e-01 77.4% 98.1%
7rlrA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 40.0 3.00e-01 75.0% 81.5%
1nrfA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 41.0 3.03e-01 76.2% 75.2%
1xkzC00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 41.0 3.01e-01 76.2% 74.2%
2xepB02 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.57 42.0 3.00e-01 77.4% 78.5%
4dzrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 41.0 3.31e-01 76.2% 71.2%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 42.0 3.48e-01 83.3% 43.8%
4bsjA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 4.04e-01 90.5% 93.5%
1ew3A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 48.0 3.92e-01 97.6% 67.3%
2pkhA01 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.55 46.0 3.98e-01 91.7% 94.6%
3ibwA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.55 39.0 4.01e-01 94.0% 79.7%
2f1fA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.55 39.0 4.05e-01 94.0% 81.0%
6ue9L02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 43.0 3.85e-01 86.9% 85.2%
2uuvB01 3.40.462.40 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidase, cap domain/gating helix 0.54 40.0 2.85e-01 78.6% 25.5%
3q63F00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 43.0 3.73e-01 89.3% 64.7%
3v3sA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 40.0 2.83e-01 79.8% 39.4%
3v39A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 45.0 3.25e-01 91.7% 88.3%
3v7iA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.53 43.0 3.67e-01 90.5% 89.8%
1uynX00 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.53 47.0 3.32e-01 100.0% 86.7%
6x1kA01 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.52 44.0 4.07e-01 97.6% 98.3%
2ns6A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.52 42.0 3.34e-01 89.3% 90.7%
4ponA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 38.0 3.00e-01 76.2% 93.0%
3cwfA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 37.0 3.44e-01 75.0% 99.1%
3qwuA03 3.30.70.2160 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 38.0 3.23e-01 77.4% 82.7%
1dfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 44.0 3.56e-01 97.6% 64.7%
3pu2B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.52 41.0 3.46e-01 89.3% 63.4%
2l5pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 43.0 3.52e-01 97.6% 65.7%
3duwA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 36.0 2.74e-01 76.2% 28.8%
2ogkD00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.51 44.0 3.75e-01 98.8% 87.3%
5eufA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 44.0 3.43e-01 98.8% 75.8%
3bqwA01 3.15.30.10 Alpha Beta › Super Roll › putative capsid protein of prophage fold › putative capsid protein of prophage domain like 0.50 39.0 2.96e-01 84.5% 99.0%
3rtyB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.50 40.0 3.75e-01 89.3% 76.1%
1q2lA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 36.0 2.75e-01 78.6% 61.9%
2q0oA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.50 41.0 3.31e-01 90.5% 96.4%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3939348 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.64 54.0 4.95e-01 100.0% 70.9%
3941159 284.1.1.0 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like 0.63 52.0 5.33e-01 100.0% 96.2%
4401770 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 44.0 3.69e-01 75.0% 86.7%
3036035 101.1.2.187 ↗ alpha arrays › HTH › HTH › winged helix domain › Rep3_C 0.59 45.0 4.23e-01 81.0% 81.9%
3588929 304.55.1.13 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Relaxase 0.58 47.0 3.83e-01 89.3% 76.4%
3481547 101.1.2.68 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc34 0.58 34.0 2.79e-01 78.6% 32.7%
4994660 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 41.0 3.77e-01 94.0% 56.4%
3936771 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.57 50.0 4.92e-01 100.0% 98.9%
4957166 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.57 42.0 3.44e-01 78.6% 98.7%
4287653 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.57 44.0 4.36e-01 92.9% 81.1%
3952677 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.56 43.0 4.14e-01 85.7% 73.5%
4029637 314.1.1.9 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_His 0.55 48.0 3.23e-01 100.0% 64.2%
5020004 304.130.1.1 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein MK0293 N-terminal domain › Uncharacterized protein MK0293 N-terminal domain › Ni_insertion 0.55 37.0 3.94e-01 90.5% 78.7%
4995222 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.54 39.0 4.09e-01 90.5% 85.3%
3649488 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.54 46.0 3.84e-01 100.0% 97.5%
3399771 210.1.4.1 ↗ a+b four layers › Ntn/PP2C › Ntn › (Glycosyl)asparaginase › Asparaginase_2 0.53 45.0 3.08e-01 100.0% 85.0%
3395043 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.53 46.0 3.75e-01 98.8% 94.5%
3527092 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.53 42.0 3.94e-01 88.1% 92.4%
3536545 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.53 46.0 3.78e-01 97.6% 69.7%
3183621 2003.1.2.49 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2+FAD_binding_3 0.53 41.0 2.59e-01 83.3% 84.9%
5073850 304.43.1.6 ↗ a+b two layers › Alpha-beta plaits › Hypothetical protein TT1725 › Hypothetical protein TT1725 › FLAD1_M 0.53 38.0 3.97e-01 94.0% 85.3%
4277614 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.52 38.0 3.50e-01 77.4% 67.3%
5019917 223.1.1.13 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3 0.52 41.0 3.59e-01 89.3% 60.7%
3845688 9.1.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.52 45.0 3.68e-01 97.6% 67.5%
4150515 11.2.1.44 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2_SHIP1-2_2nd 0.52 44.0 3.75e-01 96.4% 83.4%
4959631 223.1.1.25 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_9 0.52 42.0 3.05e-01 91.7% 33.2%
None — 0.52 37.0 2.67e-01 76.2% 74.9%
4955085 304.162.1.0 ↗ a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain 0.52 41.0 4.17e-01 94.0% 90.0%
4001691 3937.1.1.2 ↗ alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin 0.52 43.0 3.08e-01 92.9% 91.5%
5015712 2003.1.5.54 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_10 0.52 37.0 2.65e-01 76.2% 71.6%
5005033 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.52 37.0 3.86e-01 97.6% 82.5%
3609636 309.1.1.0 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase 0.51 38.0 2.71e-01 82.1% 85.9%
5033257 304.126.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.51 33.0 3.49e-01 77.4% 74.7%
3875701 274.1.1.38 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › Pecanex_C 0.51 43.0 3.24e-01 98.8% 92.7%
3602264 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.50 33.0 3.37e-01 83.3% 67.1%
3730942 109.4.1.1214 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RPT 0.50 37.0 2.50e-01 81.0% 24.9%
4553370 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.50 37.0 3.35e-01 78.6% 64.3%
4540169 304.8.1.8 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_4 0.50 36.0 3.69e-01 95.2% 77.6%