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PH2015_18_scaffold_2_prodigal-single.1__X__X__00383

Bact-Vir

PH2015_18_scaffold_2_prodigal-single.1__X__X__00383

Identity

Kingdom:
phage

Quality

91.9 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 4-52
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 56.0 4.33e-01 95.9% 36.7%
7n0eB02 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.73 49.0 3.69e-01 73.5% 28.7%
1jvaB02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.69 49.0 3.84e-01 81.6% 34.5%
1t0tV02 3.30.70.1030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Apc35880; domain 1 0.69 56.0 4.37e-01 95.9% 41.4%
5hvqC01 3.90.1150.220 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.66 49.0 4.17e-01 79.6% 50.0%
3kreA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.66 58.0 4.13e-01 98.0% 45.0%
1wp0A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.66 53.0 3.75e-01 89.8% 80.0%
1zcdA00 1.20.1530.10 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain 0.65 56.0 3.37e-01 100.0% 69.9%
3evzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 47.0 3.27e-01 81.6% 22.9%
6fjxA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.65 55.0 3.44e-01 95.9% 62.7%
1ldjA05 4.10.1030.10 Few Secondary Structures › Irregular › Ring Box Chain A; domain 5 › Ring Box Chain A; domain 5 0.64 39.0 3.47e-01 71.4% 40.5%
2bkwA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.64 53.0 3.99e-01 91.8% 38.3%
1rzmA01 3.30.70.1140 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phospho-2-dehydro-3-deoxyheptonate aldolase; domain 1 0.64 45.0 3.92e-01 83.7% 45.0%
5umbA02 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.62 47.0 4.09e-01 81.6% 56.0%
2v8hA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 49.0 3.92e-01 100.0% 55.2%
3lm4A01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.60 43.0 3.20e-01 77.6% 27.9%
1i1iP02 3.40.390.10 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › Collagenase (Catalytic Domain) 0.60 46.0 3.32e-01 85.7% 31.8%
3g8qA02 3.30.70.1940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 46.0 3.92e-01 83.7% 53.8%
3e05B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.59 43.0 2.95e-01 81.6% 27.1%
2k6vA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 49.0 3.44e-01 95.9% 73.8%
3bzwF00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.59 48.0 3.13e-01 95.9% 37.4%
2gukA00 3.30.2190.10 Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like 0.59 40.0 3.20e-01 75.5% 32.4%
3hm2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 40.0 2.89e-01 75.5% 28.1%
2mcqA01 3.30.300.90 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like 0.58 40.0 3.57e-01 75.5% 49.3%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 49.0 3.25e-01 95.9% 75.0%
2zihC00 1.10.3630.10 Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like 0.57 47.0 2.90e-01 89.8% 16.8%
1j4wA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.56 41.0 3.70e-01 81.6% 59.5%
3afcA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 43.0 2.53e-01 87.8% 23.5%
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 41.0 3.24e-01 77.6% 41.1%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.56 43.0 3.30e-01 95.9% 44.5%
2qrdE01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.55 46.0 3.07e-01 89.8% 93.9%
1x6oA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 40.0 3.52e-01 79.6% 49.4%
3ke2B00 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 0.55 47.0 3.72e-01 91.8% 100.0%
7o4xA01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 35.0 2.84e-01 71.4% 31.3%
4c98A02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 39.0 2.87e-01 77.6% 55.5%
1qlmA02 3.30.1030.10 Alpha Beta › 2-Layer Sandwich › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 0.53 38.0 2.68e-01 83.7% 73.2%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.52 34.0 3.07e-01 75.5% 47.8%
6ztgA01 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.52 39.0 3.43e-01 81.6% 74.7%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 37.0 2.61e-01 83.7% 48.9%
2dewX02 2.60.40.1700 Mainly Beta › Sandwich › Immunoglobulin-like › Protein-arginine deiminase, central domain 0.51 39.0 2.89e-01 93.9% 85.5%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4953135 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.82 60.0 4.18e-01 77.6% 87.6%
3489283 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.81 59.0 4.19e-01 77.6% 85.2%
3457354 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.79 57.0 4.01e-01 77.6% 57.9%
4203062 7529.1.1.0 a/b three-layered sandwiches › Macro domain-like › Macro domain-like › Macro domain-like 0.78 58.0 3.81e-01 79.6% 36.4%
3865493 5001.1.1.5 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.76 66.0 4.04e-01 95.9% 38.2%
3867638 109.4.1.32 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G 0.76 57.0 3.41e-01 79.6% 15.2%
4978789 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.76 57.0 4.60e-01 85.7% 42.1%
4972277 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.75 56.0 4.86e-01 83.7% 51.2%
3252212 283.2.1.0 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like 0.74 65.0 5.65e-01 100.0% 66.7%
3599395 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.71 49.0 2.84e-01 71.4% 35.0%
3887540 5001.1.1.1 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.70 57.0 3.22e-01 93.9% 17.4%
5078195 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.69 51.0 4.51e-01 85.7% 53.3%
4989412 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.69 60.0 3.84e-01 100.0% 74.6%
3649913 5050.1.1.58 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C 0.68 55.0 3.75e-01 87.8% 38.8%
3939904 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 57.0 3.17e-01 91.8% 20.5%
4638770 601.48.1.0 alpha bundles › Four-helical up-and-down bundle › vWA2 C-terminal domain › vWA2 C-terminal domain 0.67 49.0 3.94e-01 77.6% 45.6%
5040519 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.67 57.0 3.60e-01 95.9% 46.9%
2755357 232.1.1.3 a+b duplicates or obligate multimers › Pentein › Pentein › Pentein › PAD 0.66 55.0 3.28e-01 91.8% 16.8%
4951571 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.66 55.0 3.56e-01 100.0% 70.8%
3585877 5001.1.1.0 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.66 50.0 3.17e-01 83.7% 38.8%
3208120 633.23.1.22 alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.65 55.0 3.85e-01 93.9% 64.5%
3332888 101.1.2.86 alpha arrays › HTH › HTH › winged helix domain › SMC_Nse1 0.65 50.0 4.43e-01 87.8% 57.3%
4282814 304.30.1.1 a+b two layers › Alpha-beta plaits › D-ribose-5-phosphate isomerase (RpiA), lid domain › D-ribose-5-phosphate isomerase (RpiA), lid domain › Rib_5-P_isom_A 0.64 46.0 4.05e-01 77.6% 58.7%
4473370 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.64 50.0 4.39e-01 91.8% 56.0%
5044537 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.64 49.0 4.32e-01 89.8% 55.0%
3929874 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 48.0 3.26e-01 81.6% 57.9%
3940062 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.63 45.0 2.72e-01 75.5% 85.1%
3894384 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.63 47.0 4.27e-01 83.7% 60.0%
3277886 225.1.1.3 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 › HATPase_c 0.63 51.0 3.81e-01 95.9% 55.1%
3425721 252.1.1.2 a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD › DUF7028 0.63 44.0 3.95e-01 81.6% 50.7%
3460270 603.1.1.143 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF547 0.62 49.0 3.22e-01 87.8% 23.9%
3681475 2484.1.1.110 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.61 53.0 3.15e-01 98.0% 14.2%
5060820 2484.1.1.18 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.61 55.0 3.15e-01 98.0% 31.5%
184986 1.1.13.4 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.61 52.0 3.96e-01 100.0% 47.6%
3602264 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.60 44.0 3.72e-01 81.6% 45.9%
3992603 273.1.1.1 a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.60 49.0 3.11e-01 95.9% 34.0%
3786266 2004.1.1.495 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TRAPPC10_1st 0.59 50.0 3.33e-01 93.9% 49.7%
4991352 2002.1.1.120 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.58 45.0 2.87e-01 91.8% 16.5%
None 0.58 41.0 2.97e-01 75.5% 89.4%
5051580 2003.1.5.82 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.57 41.0 2.86e-01 77.6% 21.6%
3397380 109.4.1.1357 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_2, TPR_16 0.57 43.0 2.76e-01 81.6% 25.0%
3519635 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.56 52.0 3.90e-01 100.0% 45.5%
4034209 1.1.13.4 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.56 43.0 3.33e-01 91.8% 50.0%
4446761 3433.1.2.0 a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Chromosome-encoded ParB dimerization domain 0.56 45.0 4.39e-01 89.8% 78.2%
3636290 101.1.2.22 alpha arrays › HTH › HTH › winged helix domain › PCI 0.56 48.0 4.03e-01 93.9% 85.0%
2709124 7510.1.1.0 a/b three-layered sandwiches › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like 0.56 46.0 3.23e-01 100.0% 61.4%
5005105 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.55 42.0 3.38e-01 81.6% 47.8%
5036311 101.1.2.101 alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.54 37.0 3.02e-01 83.7% 36.0%
2323881 3433.1.2.1 a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Chromosome-encoded ParB dimerization domain › ParB_dimer 0.54 40.0 3.93e-01 89.8% 75.9%
3181298 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 44.0 3.30e-01 89.8% 37.4%
4979485 101.1.2.30 alpha arrays › HTH › HTH › winged helix domain › TrmB 0.53 38.0 3.31e-01 81.6% 49.3%
3944564 3735.1.1.14 beta meanders › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › TEN_YD-shell 0.53 45.0 2.50e-01 100.0% 37.5%
4791706 304.126.1.4 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 › V_ATPase_I_N 0.53 37.0 3.38e-01 81.6% 48.6%
3737786 580.1.1.1 extended segments › Epsilon subunit of mitochondrial F1F0-ATP synthase › Epsilon subunit of mitochondrial F1F0-ATP synthase › Epsilon subunit of mitochondrial F1F0-ATP synthase › ATP-synt_Eps 0.53 36.0 3.52e-01 73.5% 69.1%
4999154 101.1.2.30 alpha arrays › HTH › HTH › winged helix domain › TrmB 0.52 38.0 3.24e-01 81.6% 45.9%
141070 223.3.1.1 a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.50 38.0 3.68e-01 85.7% 98.2%