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MK448933.1__QBX27862.1__Javan420_0062__00062

Bact-Vir

MK448933.1__QBX27862.1__Javan420_0062__00062

Identity

Accession:
MK448933 ↗
Kingdom:
phage

Quality

72.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_Javan420

TaxID: 2548157

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 89-177
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1nxzA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.75 55.0 6.06e-01 88.8% 95.8%
3okxB00 2.40.30.70 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › YaeB-like 0.73 55.0 4.62e-01 79.8% 71.1%
1z85A01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.71 50.0 5.65e-01 88.8% 97.0%
1vhkA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.70 53.0 5.80e-01 86.5% 98.6%
3vseA01 2.30.130.10 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › PUA domain 0.69 50.0 5.54e-01 87.6% 98.6%
2nv4A00 2.40.30.70 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › YaeB-like 0.68 51.0 4.54e-01 80.9% 81.1%
2egvA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.67 47.0 5.30e-01 87.6% 98.5%
3gqbA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.66 41.0 4.51e-01 86.5% 77.5%
3gg8C03 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.66 53.0 5.16e-01 85.4% 84.5%
7r6yA01 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.65 52.0 5.16e-01 84.3% 92.4%
4i86A00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.65 50.0 4.84e-01 89.9% 72.5%
8eq1A01 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.64 51.0 5.16e-01 84.3% 90.9%
3cnrB00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.64 52.0 5.19e-01 87.6% 89.2%
1ywuA00 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.64 48.0 4.32e-01 89.9% 56.8%
5gj7A02 2.40.110.10 Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2 0.64 51.0 5.06e-01 87.6% 96.8%
7oo1A01 2.40.33.10 Mainly Beta › Beta Barrel › M1 Pyruvate Kinase; Domain 3 › PK beta-barrel domain-like 0.64 46.0 4.98e-01 76.4% 97.4%
2pvzB01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.63 50.0 3.79e-01 84.3% 47.1%
6oqrA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.63 39.0 3.94e-01 86.5% 62.2%
4zgnB00 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.62 41.0 3.91e-01 76.4% 57.3%
7cayA01 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.60 49.0 4.76e-01 89.9% 82.0%
3g7kA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.60 47.0 3.65e-01 84.3% 49.2%
4rm7A02 2.40.110.10 Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2 0.60 47.0 4.49e-01 87.6% 88.1%
6vbkA01 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.59 51.0 4.78e-01 95.5% 83.8%
3iuwA00 2.30.130.30 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. 0.59 47.0 4.98e-01 93.3% 100.0%
5dnoA00 3.10.590.10 Alpha Beta › Roll › ph1033 like fold › ph1033 like domains 0.59 50.0 4.24e-01 100.0% 92.1%
4q63A00 2.40.10.430 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.58 40.0 4.01e-01 85.4% 68.8%
4f3lA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.58 40.0 3.63e-01 70.8% 96.7%
4g6iC02 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.58 42.0 4.18e-01 98.9% 72.3%
1vw3C01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 48.0 4.28e-01 98.9% 65.6%
2derA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.55 34.0 3.49e-01 73.0% 62.1%
2v31A01 2.40.30.180 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Ubiquitin-activating enzyme E1, FCCH domain 0.55 43.0 4.23e-01 94.4% 78.4%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.54 43.0 4.10e-01 86.5% 80.8%
2gpjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 40.0 3.90e-01 82.0% 77.0%
2nvaA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.52 41.0 3.65e-01 87.6% 58.6%
8gz3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 39.0 3.92e-01 85.4% 77.4%
4xg1A01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.52 40.0 3.32e-01 88.8% 43.8%
1dl5A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 45.0 3.50e-01 100.0% 56.7%
4odbA00 2.60.90.20 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Virus attachment protein , globular domain 0.51 40.0 3.28e-01 84.3% 51.2%
4exoA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 36.0 3.09e-01 74.2% 61.6%
2ok7A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 41.0 3.85e-01 89.9% 81.2%
4hj1A01 2.60.98.50 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › 0.50 39.0 3.28e-01 85.4% 96.4%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3289974 1.1.9.20 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA_4 0.74 55.0 6.10e-01 91.0% 100.0%
140548 1.1.7.13 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › TrmO 0.73 55.0 4.56e-01 79.8% 66.0%
4105189 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.67 50.0 4.91e-01 88.8% 73.7%
3386972 1.1.9.20 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA_4 0.66 47.0 5.21e-01 88.8% 95.7%
4265819 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.65 51.0 4.91e-01 89.9% 75.0%
3945543 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.64 52.0 5.39e-01 87.6% 95.3%
5017260 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.64 51.0 4.46e-01 86.5% 97.8%
325960 286.1.1.3 ↗ a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PrpF 0.63 50.0 3.93e-01 84.3% 53.0%
4452931 239.1.1.3 ↗ beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.62 50.0 4.78e-01 88.8% 97.1%
4930890 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 41.0 4.45e-01 80.9% 82.7%
3931076 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.60 40.0 3.69e-01 96.6% 50.8%
4085589 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.60 41.0 4.33e-01 84.3% 78.8%
3243970 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.60 48.0 4.68e-01 87.6% 79.0%
3223140 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.59 42.0 3.86e-01 100.0% 55.8%
3967782 1.1.5.8 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.59 50.0 4.45e-01 95.5% 66.2%
3220873 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.58 38.0 3.72e-01 100.0% 60.0%
3624597 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.57 38.0 3.75e-01 100.0% 61.0%
3972645 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.57 44.0 3.84e-01 84.3% 54.8%
4060133 1.1.7.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › RimM 0.57 40.0 4.07e-01 83.1% 74.4%
4312484 239.1.1.3 ↗ beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal_L25p 0.55 43.0 4.17e-01 88.8% 99.0%
3235708 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.55 36.0 3.52e-01 100.0% 60.0%
4973665 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 39.0 3.99e-01 80.9% 78.8%
3625308 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.54 36.0 3.27e-01 100.0% 48.0%
3661156 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.54 32.0 2.86e-01 83.1% 38.5%
3281720 223.1.1.36 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › MLTR_LBD 0.54 37.0 3.14e-01 70.8% 94.7%
4028468 1.1.7.35 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.54 45.0 4.25e-01 91.0% 96.2%
3680180 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.54 47.0 3.72e-01 100.0% 79.3%
4942656 1.1.7.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.54 42.0 4.11e-01 86.5% 79.0%
4134441 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 36.0 3.31e-01 71.9% 64.8%
4172288 1.1.7.8 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Ribosomal_L35Ae 0.53 41.0 4.11e-01 87.6% 83.3%
3731651 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 36.0 3.91e-01 78.7% 86.7%
3388100 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.52 39.0 2.62e-01 82.0% 26.9%
3391363 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.52 44.0 3.61e-01 98.9% 92.2%
3218472 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.51 36.0 3.31e-01 100.0% 53.6%
9354 2003.1.5.4 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PCMT 0.51 45.0 3.46e-01 100.0% 54.0%
None — 0.51 38.0 2.56e-01 83.1% 34.0%
3877719 1.1.7.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Orn_DAP_Arg_deC 0.50 41.0 3.26e-01 91.0% 46.7%
2855773 1.1.7.8 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Ribosomal_L35Ae 0.50 39.0 3.55e-01 85.4% 79.7%
4954422 7569.1.1.2 ↗ a/b three-layered sandwiches › Uracil-DNA glycosylase-like › Uracil-DNA glycosylase-like › Uracil-DNA glycosylase-like › DUF5591 0.50 40.0 3.44e-01 89.9% 80.7%
D2 high residues 248-300
PDB
Domain cluster: rep: MK448970.1__QBX29857.1__Javan516_0011__00063__D353-402
D3 medium residues 5-48
PDB