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STL6-S73_scaffold_1_prodigal-single.1__X__X__00084

Bact-Vir

STL6-S73_scaffold_1_prodigal-single.1__X__X__00084

Identity

Kingdom:
phage

Quality

93.1 mean pLDDT

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 3-146
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13328.13 best HD_4 42.7 6.90e-11 75.7% 52.6%
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7smgD00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.97 92.0 9.35e-01 98.6% 98.6%
3nqwA00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.89 86.0 7.87e-01 100.0% 88.8%
1vj7B01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.88 80.0 7.46e-01 100.0% 78.6%
7qocA01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.88 81.0 7.34e-01 96.5% 84.5%
1xx7A00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.70 62.0 5.81e-01 93.1% 90.7%
8gtzA03 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.62 55.0 5.14e-01 97.9% 96.1%
3ztaA00 1.10.490.130 Mainly Alpha › Orthogonal Bundle › Globin-like › 0.57 42.0 4.35e-01 85.4% 80.6%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 28.0 3.44e-01 84.7% 75.3%
2w96A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.55 37.0 4.09e-01 81.2% 86.7%
2vj4A01 1.10.10.2060 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 30.0 3.65e-01 74.3% 84.4%
3m9vA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 37.0 3.60e-01 70.8% 84.1%
4xvxA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 37.0 3.71e-01 71.5% 83.0%
3nc3B00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.52 40.0 3.00e-01 81.9% 58.7%
3fnbA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.52 37.0 4.07e-01 86.1% 93.9%
2c0uA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 36.0 3.42e-01 71.5% 81.7%
3hdeC00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.51 33.0 3.19e-01 83.3% 57.3%
5iduC03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 36.0 3.53e-01 73.6% 91.8%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4959337 131.1.1.0 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like 0.96 90.0 9.15e-01 98.6% 98.6%
3960277 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.91 87.0 8.73e-01 98.6% 97.9%
3265073 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.91 85.0 7.46e-01 97.2% 76.5%
3973478 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.90 87.0 7.94e-01 100.0% 87.7%
3584809 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.90 87.0 7.70e-01 100.0% 81.9%
4606782 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.90 87.0 8.00e-01 100.0% 88.0%
3386161 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.87 81.0 7.04e-01 97.9% 78.0%
4215090 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.85 81.0 7.09e-01 100.0% 78.5%
4935670 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.85 78.0 7.03e-01 100.0% 74.1%
3683167 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.85 81.0 7.21e-01 99.3% 83.7%
3665874 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.84 80.0 6.85e-01 99.3% 79.5%
3964980 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.84 79.0 6.99e-01 100.0% 84.5%
1503542 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.80 66.0 6.40e-01 85.4% 84.1%
3513291 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.80 75.0 6.62e-01 100.0% 79.5%
3927226 131.1.1.12 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 0.78 71.0 6.81e-01 97.2% 89.1%
5011113 131.1.1.10 alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_3 0.66 58.0 5.37e-01 92.4% 88.6%
5037545 604.39.1.0 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.55 36.0 3.40e-01 96.5% 54.1%
3485641 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.54 28.0 3.71e-01 83.3% 94.7%
5036832 604.39.1.0 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.54 37.0 3.60e-01 95.1% 61.9%
4937752 5050.1.1.87 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › LPG_synthase_TM 0.51 38.0 3.30e-01 77.1% 67.6%
3833109 7015.1.1.0 alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.51 36.0 3.41e-01 71.5% 70.6%
3740405 109.4.1.15 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › VHS 0.50 41.0 3.96e-01 98.6% 76.4%
D2 high residues 155-235
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gm2A00 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.69 51.0 3.87e-01 77.8% 81.4%
1cjxA01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.63 45.0 3.68e-01 74.1% 42.0%
4p78C00 3.30.920.30 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Hypothetical protein. 0.63 47.0 5.10e-01 96.3% 100.0%
3rheA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.61 41.0 3.69e-01 74.1% 49.1%
6bogA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.59 31.0 3.83e-01 82.7% 80.8%
4hc5D00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.59 51.0 4.43e-01 100.0% 81.7%
3ossD00 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.58 39.0 3.20e-01 100.0% 35.7%
2yrrA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 45.0 4.10e-01 85.2% 82.0%
3t4nA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.58 50.0 4.83e-01 100.0% 97.9%
3oajA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.57 42.0 3.49e-01 98.8% 43.8%
1yzyA02 3.40.980.20 Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › Four-carbon acid sugar kinase, nucleotide binding domain 0.57 40.0 3.16e-01 72.8% 88.8%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.57 35.0 3.99e-01 82.7% 86.0%
3ghjA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.56 48.0 4.31e-01 96.3% 84.5%
2ef8A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.56 46.0 4.58e-01 97.5% 88.1%
2fokA03 3.40.91.30 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.53 42.0 3.34e-01 86.4% 85.7%
4mtsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.53 43.0 3.84e-01 95.1% 82.2%
3zqsA02 3.10.110.20 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › RWD domain-like 0.53 44.0 4.20e-01 95.1% 84.7%
4aurA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 43.0 3.13e-01 96.3% 41.0%
1zd9A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 45.0 3.62e-01 97.5% 64.5%
1ou5A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.52 38.0 3.24e-01 76.5% 66.4%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.52 38.0 3.14e-01 77.8% 67.3%
4mchA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.52 42.0 3.16e-01 96.3% 84.8%
4m4zA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 29.0 3.61e-01 85.2% 93.6%
2a3vA02 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.52 41.0 3.11e-01 88.9% 84.4%
1ae9A00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.51 37.0 2.94e-01 75.3% 76.0%
3cgbA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 41.0 3.30e-01 88.9% 95.2%
1e8oA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.51 30.0 3.19e-01 93.8% 64.9%
3pg1A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 39.0 3.42e-01 86.4% 95.3%
4qnyA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 39.0 3.51e-01 86.4% 92.4%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 42.0 3.90e-01 96.3% 84.8%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5060093 330.7.1.2 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.80 67.0 7.00e-01 95.1% 100.0%
5065528 330.7.1.0 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain 0.79 63.0 6.76e-01 90.1% 100.0%
2410067 330.7.1.2 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.71 51.0 5.72e-01 84.0% 100.0%
3403344 386.1.1.4 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.62 44.0 4.82e-01 88.9% 100.0%
3286115 331.4.1.0 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.61 53.0 4.76e-01 100.0% 80.0%
3988749 241.11.1.1 a+b two layers › Type III secretory system chaperone-like › YjbR-like › YjbR-like › YjbR 0.59 44.0 3.99e-01 81.5% 98.3%
5053431 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 0.57 45.0 3.70e-01 86.4% 56.1%
5064476 211.1.1.7 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase_4 0.57 40.0 3.45e-01 74.1% 46.7%
3356481 386.1.1.117 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › DUF7028 0.57 45.0 4.53e-01 86.4% 90.4%
4225063 3840.1.1.2 a+b two layers › Bacterial conjugation factor PsiB › Bacterial conjugation factor PsiB › Bacterial conjugation factor PsiB › PerB 0.57 42.0 3.86e-01 80.2% 77.3%
4185319 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.57 48.0 3.71e-01 100.0% 72.2%
3186255 223.1.1.21 a+b three layers › Profilin-like › sensor domains › sensor domains › HODM_asu-like 0.56 48.0 3.31e-01 100.0% 66.3%
4194046 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.56 48.0 3.78e-01 100.0% 80.0%
4450167 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.56 48.0 3.39e-01 93.8% 84.3%
3204926 4099.1.1.3 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Spc24 0.55 38.0 3.98e-01 72.8% 81.4%
5006839 2011.2.1.7 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PAC2 0.55 48.0 3.54e-01 100.0% 79.6%
3894798 4.1.1.243 beta barrels › SH3 › SH3 › SH3 › SH3_Myosin-XVIIIa 0.55 30.0 3.83e-01 85.2% 97.8%
4012764 243.4.1.0 a+b two layers › Cystatin-like › DsbC/DsbG N-terminal domain-like › DsbC/DsbG N-terminal domain-like 0.55 36.0 4.11e-01 81.5% 98.2%
4398001 375.1.1.189 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › EcdD_BsdD_detox 0.55 38.0 3.92e-01 72.8% 77.3%
4108957 241.1.1.0 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.54 40.0 3.36e-01 81.5% 84.5%
3240027 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.54 42.0 3.04e-01 87.7% 74.1%
5073108 2004.1.1.119 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Gtr1_RagA 0.53 46.0 3.66e-01 100.0% 85.0%
1141882 4099.1.1.3 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Spc24 0.53 37.0 3.80e-01 77.8% 77.6%
3386147 2004.1.1.86 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › FeoB_N 0.53 45.0 3.50e-01 100.0% 69.5%
3510695 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.53 41.0 4.13e-01 86.4% 93.8%
4956219 7502.1.1.1 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.52 38.0 3.44e-01 80.2% 64.2%
4995512 4294.1.1.2 few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › Trm112p 0.51 36.0 4.01e-01 75.3% 100.0%
4032204 2484.1.1.178 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.51 43.0 2.73e-01 91.4% 44.9%
4435043 2484.1.1.178 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.51 42.0 2.72e-01 91.4% 45.1%
4263806 4099.1.1.3 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Spc24 0.50 34.0 3.72e-01 70.4% 94.9%
3976043 209.1.1.6 a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › InvE_AD 0.50 34.0 2.96e-01 70.4% 95.6%