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MK448996.1__QBX31262.1__Javan628_0018__00038

Bact-Vir

MK448996.1__QBX31262.1__Javan628_0018__00038

Identity

Accession:
MK448996 ↗
Kingdom:
phage

Quality

86.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_Javan628

TaxID: 2548287

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 2-50
PDB
Domain cluster: rep: FM163528.1__CAQ57834.1__X__00039__D2-50
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2hjqA01 3.40.5.20 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › YqbF domain 0.69 52.0 5.38e-01 100.0% 93.5%
2kt2A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 52.0 4.82e-01 100.0% 98.6%
1ciaA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.64 49.0 3.28e-01 87.8% 85.9%
2v9kA03 3.30.70.2510 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 50.0 3.92e-01 98.0% 84.0%
3g7kB02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.61 44.0 3.07e-01 79.6% 77.3%
5uzgA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.60 48.0 4.16e-01 100.0% 87.8%
3h5aD01 3.90.930.70 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.59 45.0 3.77e-01 83.7% 88.6%
3kxyT00 6.20.290.10 Special › Other non-globular › Dna Ligase; domain 1 › 0.59 33.0 2.97e-01 75.5% 40.0%
3lpxB02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.59 44.0 3.74e-01 87.8% 78.7%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.59 41.0 3.46e-01 75.5% 63.3%
5i0fB04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 42.0 3.63e-01 79.6% 46.4%
1svdM00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.58 49.0 3.87e-01 100.0% 53.7%
7tg5A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.57 45.0 3.67e-01 100.0% 43.0%
1p2fA02 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 0.57 41.0 3.52e-01 83.7% 87.4%
2otnB01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.57 40.0 3.01e-01 79.6% 61.6%
2rijA01 3.30.70.2010 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 41.0 3.01e-01 85.7% 81.9%
3h8uA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 46.0 3.61e-01 100.0% 41.0%
5c7qB00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.56 38.0 2.70e-01 71.4% 70.0%
1uwvA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 40.0 3.10e-01 85.7% 79.6%
1bdyA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.55 45.0 3.52e-01 100.0% 95.9%
2w00A05 1.20.58.2040 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 42.0 3.36e-01 83.7% 51.5%
4lxjA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 40.0 2.46e-01 89.8% 95.5%
5aj3Q00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 37.0 2.99e-01 75.5% 59.6%
4l8nA03 3.30.160.670 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 37.0 2.59e-01 73.5% 31.1%
5eyaF00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.53 40.0 3.55e-01 100.0% 55.3%
2ifcA01 1.10.580.10 Mainly Alpha › Orthogonal Bundle › Citrate Synthase; domain 1 › Citrate Synthase, domain 1 0.53 42.0 2.73e-01 89.8% 68.4%
3c8uA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 44.0 2.99e-01 98.0% 79.1%
3rosA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.53 40.0 2.60e-01 87.8% 39.9%
5unhA02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 40.0 2.54e-01 85.7% 48.7%
7vufD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 44.0 2.96e-01 98.0% 50.7%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.52 37.0 2.54e-01 77.6% 67.9%
4pfyA02 3.90.76.10 Alpha Beta › Alpha-Beta Complex › Dipeptide-binding Protein; domain 1 › Dipeptide-binding Protein; Domain 1 0.51 35.0 2.71e-01 77.6% 53.1%
1cjaA02 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.51 38.0 2.74e-01 89.8% 59.9%
3x3bA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 41.0 2.67e-01 100.0% 50.9%
4fixA01 3.90.550.60 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › 0.50 39.0 2.41e-01 100.0% 82.4%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031645 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.91 80.0 8.00e-01 100.0% 94.0%
4991614 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 60.0 5.83e-01 100.0% 76.4%
3595897 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.76 57.0 5.55e-01 100.0% 72.7%
4956454 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.76 59.0 5.69e-01 100.0% 76.4%
4927873 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.74 60.0 5.70e-01 100.0% 75.0%
3593781 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.74 62.0 5.96e-01 100.0% 80.0%
3592220 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.74 59.0 5.19e-01 100.0% 59.5%
4967982 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.73 57.0 5.90e-01 98.0% 97.7%
5024995 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.72 58.0 5.75e-01 100.0% 84.9%
4230268 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.71 56.0 5.85e-01 98.0% 97.8%
5033467 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 55.0 5.62e-01 100.0% 93.8%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.69 54.0 5.56e-01 100.0% 97.8%
5009 4076.3.1.2 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › YqbF 0.69 52.0 5.30e-01 100.0% 87.8%
4978692 1075.1.2.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.69 58.0 3.62e-01 100.0% 45.6%
3705471 3529.1.1.1 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault 0.68 53.0 5.17e-01 100.0% 78.2%
3703797 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.68 53.0 5.17e-01 100.0% 78.2%
3251095 3529.1.1.1 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault 0.67 53.0 4.98e-01 100.0% 71.7%
4057802 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.66 50.0 5.16e-01 100.0% 95.6%
4536596 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.66 53.0 5.34e-01 100.0% 93.8%
4946992 873.1.1.1 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.63 48.0 3.37e-01 83.7% 39.9%
3475881 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 52.0 4.64e-01 100.0% 72.9%
3519454 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.59 49.0 3.19e-01 100.0% 22.6%
4953526 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.57 44.0 3.32e-01 85.7% 90.4%
4934987 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.57 41.0 4.16e-01 98.0% 93.3%
5046333 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.56 41.0 3.24e-01 87.8% 97.7%
5001806 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.56 40.0 4.09e-01 100.0% 89.6%
4593896 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.55 39.0 4.02e-01 98.0% 93.3%
2390534 2002.1.1.139 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › BKACE 0.55 42.0 2.71e-01 89.8% 26.7%
3691454 2002.1.1.96 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › S-methyl_trans 0.54 44.0 2.77e-01 98.0% 89.7%
4977846 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.53 39.0 3.09e-01 87.8% 97.7%
4475754 4076.2.1.5 ↗ a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like › MRNIP 0.53 42.0 3.87e-01 87.8% 90.8%
5072409 873.1.1.1 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.53 37.0 2.72e-01 83.7% 40.0%
4976594 873.1.1.1 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.51 40.0 2.83e-01 89.8% 73.3%
3923319 2484.1.1.13 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.51 40.0 2.63e-01 89.8% 80.0%
3742680 10.12.1.51 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy_2 0.51 37.0 2.30e-01 77.6% 41.7%
4967222 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.50 40.0 3.87e-01 95.9% 80.0%
4160542 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.50 41.0 3.93e-01 95.9% 82.8%
5081432 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.50 36.0 2.68e-01 85.7% 42.4%
4263982 375.1.1.302 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › MRNIP 0.50 37.0 3.60e-01 79.6% 100.0%