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MK448453.1__QBX09614.1__JavanS360_0001__00021

Bact-Vir

MK448453.1__QBX09614.1__JavanS360_0001__00021

Identity

Accession:
MK448453 ↗
Kingdom:
phage

Quality

90.8 mean pLDDT

Taxonomy

Streptococcus_satellite_phage_Javan360

TaxID: 2558660

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 119-165
PDB
Domain cluster: rep: MK448817.1__QBX21733.1__Javan59_0004__00056__D7-41
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01610.24 best DDE_Tnp_ISL3 39.2 9.90e-10 66.0% 12.9%
D2 medium residues 1-55
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4c9yA00 1.10.10.1890 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ska1 microtubule binding domain-like 0.78 47.0 3.53e-01 81.8% 27.6%
5nohA00 1.20.120.1350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain 0.59 49.0 4.15e-01 100.0% 54.4%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 46.0 3.83e-01 94.5% 46.2%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 42.0 3.52e-01 94.5% 45.0%
1lbvA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.55 42.0 3.32e-01 90.9% 85.5%
5ygqA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 48.0 3.21e-01 100.0% 25.6%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 45.0 3.81e-01 98.2% 54.3%
1x74A04 3.30.1540.10 Alpha Beta › 2-Layer Sandwich › formyl-coa transferase, domain 3 › formyl-coa transferase, domain 3 0.52 33.0 2.93e-01 72.7% 39.6%
1hywA00 3.30.1580.10 Alpha Beta › 2-Layer Sandwich › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W 0.51 39.0 3.87e-01 89.1% 89.7%
5n1qB02 3.30.70.470 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 35.0 2.68e-01 74.5% 34.7%
2wteA02 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 0.51 42.0 3.87e-01 92.7% 94.4%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032740 2484.1.1.102 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_ISL3 0.88 81.0 5.13e-01 100.0% 23.7%
3513653 7525.1.1.2 ↗ a/b three-layered sandwiches › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › His_Phos_2 0.62 51.0 3.31e-01 98.2% 28.0%
3781291 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.62 49.0 4.18e-01 94.5% 53.0%
3935332 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.61 47.0 3.69e-01 94.5% 37.7%
4662222 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.61 48.0 3.83e-01 94.5% 41.7%
3886971 3704.1.1.0 ↗ alpha superhelices › Apoptotic protease-activating factor 1 (Apaf-1) helical domain › Apoptotic protease-activating factor 1 (Apaf-1) helical domain › Apoptotic protease-activating factor 1 (Apaf-1) helical domain 0.60 46.0 3.23e-01 90.9% 26.3%
3783976 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.58 45.0 4.01e-01 94.5% 56.7%
3771989 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.58 46.0 3.59e-01 94.5% 37.8%
4944680 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 47.0 2.67e-01 96.4% 34.4%
3786162 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.57 46.0 3.96e-01 94.5% 54.7%
4972215 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.56 46.0 3.10e-01 96.4% 23.8%
3392569 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.56 44.0 3.49e-01 98.2% 40.0%
4946773 109.2.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid 0.55 44.0 2.77e-01 89.1% 15.8%
4178886 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.55 43.0 3.69e-01 94.5% 51.0%
3805561 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.54 41.0 3.27e-01 87.3% 48.0%
3599395 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 45.0 2.77e-01 100.0% 30.0%
3735629 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.54 45.0 2.69e-01 100.0% 22.2%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 41.0 3.35e-01 94.5% 41.7%
3713218 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.53 43.0 3.38e-01 90.9% 56.0%
3628456 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.53 45.0 3.47e-01 98.2% 41.4%
5050732 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 0.52 43.0 3.44e-01 98.2% 44.2%
3214720 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.52 40.0 3.56e-01 94.5% 57.9%
4083451 192.2.1.20 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ASNSD1-SEP 0.51 40.0 3.66e-01 94.5% 63.7%
3937568 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.51 41.0 3.57e-01 89.1% 87.1%
3941548 101.1.2.264 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_46 0.51 38.0 3.61e-01 89.1% 92.0%
3222766 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.51 38.0 3.44e-01 92.7% 55.6%
D3 medium residues 56-117
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lhrA00 1.20.58.1270 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 62.0 5.77e-01 91.9% 70.5%
4rg9B01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.76 55.0 4.03e-01 82.3% 28.7%
4ui9Y03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.75 56.0 5.11e-01 83.9% 61.3%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.75 63.0 4.92e-01 93.5% 62.4%
4malA00 1.20.58.2200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 58.0 5.92e-01 83.9% 88.1%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.74 61.0 5.39e-01 91.9% 89.0%
2vkjA00 1.20.58.2030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 57.0 4.80e-01 100.0% 50.0%
2hr2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 55.0 4.16e-01 83.9% 39.7%
5m72A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.72 56.0 4.23e-01 85.5% 51.3%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.72 58.0 5.48e-01 90.3% 94.7%
8amzP01 1.25.40.570 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.71 60.0 3.72e-01 96.8% 34.4%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.70 60.0 5.26e-01 98.4% 83.5%
4jhrB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.69 60.0 3.90e-01 100.0% 60.2%
4p3fA00 1.10.3450.40 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › Signal recognition particle, SRP68 subunit, RNA-binding domain 0.69 55.0 3.96e-01 90.3% 97.4%
5jajA03 1.20.1320.30 Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › 0.69 58.0 4.84e-01 98.4% 54.3%
5l0wB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.69 55.0 4.31e-01 90.3% 47.1%
5djsA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 53.0 4.15e-01 90.3% 37.8%
4yvoA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 54.0 4.48e-01 90.3% 49.6%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.67 56.0 5.37e-01 95.2% 100.0%
2cwyA00 1.10.3450.10 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like 0.67 55.0 4.84e-01 91.9% 97.8%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.67 56.0 4.76e-01 96.8% 69.8%
5an3A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.65 52.0 4.16e-01 90.3% 44.2%
2d2sA01 1.20.58.1210 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, N-terminal helical domain 0.64 53.0 4.47e-01 98.4% 58.6%
3vprA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.62 46.0 3.59e-01 82.3% 55.9%
3ccyA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.62 49.0 3.73e-01 87.1% 56.5%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 48.0 4.24e-01 91.9% 97.0%
2ptfB02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.60 47.0 4.88e-01 87.1% 100.0%
2gomA00 1.10.10.1270 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Sbi, C3 binding domain IV 0.60 47.0 4.76e-01 95.2% 98.4%
1up6E02 3.90.110.10 Alpha Beta › Alpha-Beta Complex › L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 › Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal 0.59 49.0 3.30e-01 95.2% 23.3%
3i6iA02 3.90.25.10 Alpha Beta › Alpha-Beta Complex › UDP-galactose 4-epimerase; domain 1 › UDP-galactose 4-epimerase, domain 1 0.58 39.0 3.23e-01 71.0% 71.8%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 47.0 4.72e-01 95.2% 100.0%
4g12A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 49.0 3.79e-01 98.4% 59.7%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 45.0 4.02e-01 100.0% 98.1%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.55 45.0 3.54e-01 98.4% 83.3%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.53 46.0 3.80e-01 100.0% 73.9%
1ewrA02 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.52 36.0 2.99e-01 74.2% 71.4%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1346823 109.4.1.210 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_19 0.78 60.0 6.00e-01 83.9% 92.2%
4999825 4995.1.1.1 ↗ alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 0.74 56.0 4.77e-01 80.6% 85.0%
4580956 2484.1.1.222 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UPF0236 0.74 63.0 4.21e-01 93.5% 26.0%
3310608 109.7.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.74 56.0 5.08e-01 82.3% 63.5%
3262734 109.4.1.2377 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1, TPR_8, TPR_10, TPR_12 0.73 60.0 3.37e-01 90.3% 7.9%
4284044 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.73 63.0 4.76e-01 96.8% 68.7%
4977048 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.73 61.0 5.19e-01 93.5% 76.7%
3270696 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.72 49.0 4.16e-01 71.0% 95.2%
3623065 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.71 58.0 3.68e-01 90.3% 18.4%
4660860 2484.1.1.222 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UPF0236 0.71 62.0 4.01e-01 98.4% 23.6%
5024551 4266.2.1.1 ↗ alpha bundles › Hyaluronidase domain-like › TTHA0068-like › TTHA0068-like › DUF309 0.71 56.0 4.24e-01 88.7% 51.9%
3963715 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.71 54.0 4.69e-01 88.7% 53.7%
3646344 109.4.1.235 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SRP68 0.70 60.0 4.15e-01 96.8% 91.4%
4881789 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.69 59.0 5.28e-01 96.8% 74.7%
5078844 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.68 58.0 5.41e-01 96.8% 95.0%
3940791 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.67 51.0 4.39e-01 83.9% 95.0%
3577234 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.66 56.0 4.81e-01 96.8% 91.4%
4987854 109.3.1.487 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF5667 0.66 56.0 4.43e-01 100.0% 52.9%
3274512 626.1.1.1 ↗ alpha complex topology › Formin homology 2 domain (FH2 domain) › Formin homology 2 domain (FH2 domain) › Formin homology 2 domain (FH2 domain) › FH2 0.66 55.0 3.47e-01 95.2% 52.4%
3793263 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 50.0 3.13e-01 85.5% 14.4%
3583221 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 54.0 4.07e-01 100.0% 36.4%
3887313 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 52.0 4.40e-01 96.8% 89.6%
1685299 6110.1.1.0 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain 0.63 51.0 3.63e-01 95.2% 47.3%
3789215 109.4.1.160 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF3384 0.62 51.0 3.74e-01 90.3% 61.2%
3577105 3198.1.1.1 ↗ alpha bundles › ABA-1 repeat unit › ABA-1 repeat unit › ABA-1 repeat unit › NPA 0.62 53.0 3.50e-01 93.5% 60.8%
3935032 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.61 51.0 4.36e-01 96.8% 98.1%
3583290 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 51.0 3.92e-01 100.0% 75.0%
3583865 101.3.1.0 ↗ alpha arrays › HTH › XPC-binding domain › XPC-binding domain 0.59 49.0 4.56e-01 87.1% 73.3%
3941250 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.59 46.0 3.91e-01 88.7% 85.5%
3786934 109.3.1.162 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank, Ank_2, Ank_5 0.59 52.0 3.45e-01 100.0% 36.9%
3805826 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.57 48.0 3.91e-01 96.8% 75.2%
3503297 109.4.1.470 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › INTS2 0.57 46.0 3.59e-01 95.2% 37.5%
4011783 633.21.1.25 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › DUF7598 0.53 43.0 3.43e-01 100.0% 67.1%