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MK448818.1__QBX21840.1__Javan597_0052__00052

Bact-Vir

MK448818.1__QBX21840.1__Javan597_0052__00052

Identity

Accession:
MK448818 ↗
Kingdom:
phage

Quality

88.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_Javan597

TaxID: 2548279

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 2-43
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dbgA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.79 59.0 4.48e-01 83.3% 34.0%
1t90A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.74 54.0 3.24e-01 88.1% 11.8%
2mh3A00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.73 59.0 5.13e-01 95.2% 57.1%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.72 52.0 4.51e-01 78.6% 56.1%
2j5iA02 6.10.250.2850 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.72 48.0 5.05e-01 78.6% 78.9%
4gc5A02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.72 55.0 4.33e-01 85.7% 77.8%
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.69 56.0 4.23e-01 88.1% 39.4%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.69 50.0 4.36e-01 81.0% 60.3%
1e3mB02 3.30.420.110 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › MutS, connector domain 0.68 55.0 3.92e-01 92.9% 32.8%
2ze7A02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.67 58.0 4.39e-01 97.6% 66.7%
4qclA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.67 54.0 3.33e-01 95.2% 15.1%
4jylA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.67 50.0 4.78e-01 81.0% 73.5%
4fvmA04 6.10.10.100 Special › Helix non-globular › Helicase, Ruva Protein; domain 3 › 0.66 51.0 5.02e-01 95.2% 84.8%
3ephA02 1.10.20.140 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › 0.66 50.0 4.27e-01 85.7% 51.4%
2hw5A02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.66 49.0 4.47e-01 81.0% 61.4%
1c00A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.65 56.0 3.20e-01 100.0% 59.4%
2o38A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.64 46.0 4.18e-01 83.3% 92.3%
3ivpD01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.64 46.0 3.90e-01 81.0% 76.0%
2vf8B02 1.20.1580.10 Mainly Alpha › Up-down Bundle › ABC transporter ATPase like fold › ABC transporter ATPase like domain 0.63 52.0 3.63e-01 97.6% 66.0%
4fxdA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.63 49.0 3.48e-01 95.2% 26.8%
3ftdA02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.63 39.0 3.43e-01 97.6% 38.1%
7w5lA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.63 57.0 3.45e-01 100.0% 33.5%
3op9A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.62 48.0 4.04e-01 83.3% 54.4%
1ez0B01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.62 56.0 3.30e-01 100.0% 26.6%
3rh9A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.61 54.0 3.20e-01 100.0% 41.2%
6rnzA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.60 44.0 3.80e-01 78.6% 59.1%
2l2dA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.60 53.0 4.40e-01 100.0% 75.3%
2jx4A01 6.10.140.460 Special › Helix non-globular › Helix Hairpins › 0.59 41.0 4.04e-01 76.2% 72.9%
3oc2A01 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.59 47.0 3.19e-01 95.2% 23.7%
2nraC01 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 0.53 44.0 3.04e-01 97.6% 68.7%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3529056 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.84 73.0 6.53e-01 100.0% 70.0%
5023017 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.83 67.0 4.20e-01 92.9% 17.7%
5039400 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.81 67.0 3.99e-01 95.2% 13.0%
4966854 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.81 66.0 3.80e-01 92.9% 10.6%
5035328 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.79 64.0 4.01e-01 92.9% 17.0%
5036329 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.78 62.0 3.83e-01 92.9% 15.7%
5025842 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.78 66.0 4.48e-01 95.2% 26.7%
3584771 2484.1.1.197 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, DNA_pol_B_exo2 0.78 64.0 3.81e-01 95.2% 13.2%
4934764 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.78 63.0 3.64e-01 95.2% 10.4%
5073475 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.77 65.0 3.86e-01 95.2% 13.5%
4931231 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.77 64.0 4.12e-01 95.2% 20.0%
4983222 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.77 62.0 3.62e-01 95.2% 10.6%
4961843 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.77 64.0 4.04e-01 95.2% 17.8%
5035011 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.76 63.0 3.93e-01 95.2% 17.0%
5051933 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.76 61.0 4.04e-01 95.2% 22.4%
4929239 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 59.0 3.51e-01 95.2% 11.7%
4990754 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.74 57.0 3.59e-01 85.7% 16.4%
4315800 2004.1.1.72 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › IPT 0.73 61.0 3.72e-01 90.5% 32.8%
4218318 2484.1.1.295 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1, RNase_H_2 0.72 60.0 3.55e-01 95.2% 12.8%
4986503 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.69 52.0 3.37e-01 97.6% 17.9%
1790898 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.68 52.0 3.22e-01 92.9% 13.7%
3167764 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.68 52.0 3.17e-01 92.9% 12.1%
3797773 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.67 50.0 3.08e-01 92.9% 12.5%
4024811 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.66 53.0 3.28e-01 92.9% 14.3%
3691376 5051.1.1.2 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease 0.66 58.0 3.26e-01 100.0% 65.2%
3404726 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.64 48.0 2.96e-01 95.2% 12.5%
3214818 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.64 47.0 2.79e-01 92.9% 9.9%
3368695 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 47.0 2.80e-01 95.2% 9.7%
5051703 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.63 51.0 3.16e-01 95.2% 47.4%
None — 0.63 46.0 2.79e-01 92.9% 10.1%
3426400 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.59 44.0 4.21e-01 90.5% 74.5%