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NC_005964.2__YP_044797.1__phiMFV1_p10__00008

Bact-Vir

NC_005964.2__YP_044797.1__phiMFV1_p10__00008

Identity

Accession:
NC_005964 ↗
Kingdom:
phage

Quality

58.0 mean pLDDT

Taxonomy

Mycoplasma_phage_phiMFV1

TaxID: 280702

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 3-133
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pp6A02 2.40.10.210 Mainly Beta › Beta Barrel › Thrombin, subunit H › Phage tail proteins (gpFII-like) 0.78 38.0 5.51e-01 80.9% 100.0%
3qzqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.73 38.0 5.05e-01 84.0% 95.7%
6toaE01 2.40.10.270 Mainly Beta › Beta Barrel › Thrombin, subunit H › Bacteriophage SPP1 head-tail adaptor protein 0.66 48.0 5.42e-01 78.6% 100.0%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.65 47.0 4.49e-01 85.5% 66.0%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5038876 1.1.13.2 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_attach 0.78 53.0 6.35e-01 81.7% 100.0%
2642578 1.1.13.3 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_H_T_join 0.67 53.0 5.79e-01 92.4% 99.1%
4879695 1.1.13.29 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › E217_gp28 0.66 59.0 5.98e-01 100.0% 95.5%
3943285 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.65 52.0 5.64e-01 83.2% 100.0%
3058418 1.1.13.2 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_attach 0.65 46.0 5.17e-01 88.5% 94.1%
4259247 1.11.1.1 ↗ beta barrels › cradle loop barrel › Photosystem II accessory factor Psb28 › Photosystem II accessory factor Psb28 › Psb28 0.63 41.0 4.60e-01 83.2% 85.9%
4952909 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.62 42.0 4.62e-01 86.3% 85.7%
3903091 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.61 30.0 2.13e-01 93.1% 15.1%
4888726 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.60 49.0 4.59e-01 87.0% 82.9%
3970225 1.1.13.68 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › PF27125 0.60 40.0 4.69e-01 87.0% 100.0%
4929634 1.1.5.47 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_tube_2 0.59 50.0 3.94e-01 90.8% 69.3%
3976188 1.1.13.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tube 0.57 48.0 4.43e-01 90.8% 88.5%
3564807 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.57 30.0 2.84e-01 93.9% 41.3%
5057186 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 37.0 4.40e-01 70.2% 100.0%
3259730 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.55 42.0 4.61e-01 93.9% 95.5%
3505064 1.1.5.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin 0.55 45.0 3.59e-01 88.5% 89.4%
3848539 58.1.1.1 ↗ beta barrels › Oncogene product-like › Oncogene products › Oncogene products › TCL1_MTCP1 0.54 40.0 4.25e-01 90.1% 87.0%
3023894 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.54 43.0 4.14e-01 84.7% 93.3%
3505835 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.54 44.0 3.56e-01 88.5% 94.5%
3504295 1.1.5.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin 0.53 41.0 3.87e-01 90.1% 66.3%
3978531 223.1.1.58 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › 2CSK_N 0.52 38.0 3.64e-01 76.3% 85.8%
3727439 220.1.1.54 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_18 0.52 30.0 2.93e-01 90.8% 49.7%
D2 high residues 139-173_554-614
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1o5uA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.65 37.0 3.87e-01 81.2% 60.2%
4uzgA01 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 52.0 4.41e-01 91.7% 83.3%
2d7nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 43.0 4.69e-01 100.0% 94.8%
4b7lA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 44.0 4.36e-01 100.0% 76.0%
3qnfC01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.58 49.0 3.77e-01 89.6% 92.7%
3asiA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.58 48.0 3.97e-01 91.7% 84.3%
2dlgA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 42.0 4.56e-01 100.0% 93.8%
2d93A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 33.0 3.01e-01 79.2% 41.8%
3ffjA04 2.60.40.4040 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 35.0 3.22e-01 88.5% 48.8%
6mw4A01 2.60.120.1290 Mainly Beta › Sandwich › Jelly Rolls › 0.54 40.0 3.62e-01 78.1% 90.8%
3l5iA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 41.0 4.31e-01 100.0% 89.8%
4ofyD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 4.20e-01 100.0% 79.6%
4qhzA00 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.53 41.0 3.16e-01 84.4% 54.5%
6grsA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 4.32e-01 99.0% 86.3%
8h68A01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.53 43.0 3.33e-01 88.5% 51.4%
1u0tA02 2.60.200.30 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › Probable inorganic polyphosphate/atp-NAD kinase; domain 2 0.53 47.0 4.23e-01 100.0% 96.4%
3jqwC00 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.53 40.0 3.74e-01 93.8% 64.5%
1a21A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 4.10e-01 100.0% 81.6%
4a42A00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 45.0 4.10e-01 93.8% 88.2%
3kd4A01 2.60.40.3140 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 43.0 3.40e-01 91.7% 52.4%
5eqjB01 3.10.330.20 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.52 29.0 3.34e-01 95.8% 74.6%
4kncA02 2.60.120.1380 Mainly Beta › Sandwich › Jelly Rolls › C-terminal carbohydrate-binding module 0.52 38.0 3.62e-01 80.2% 65.0%
2dliA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.84e-01 100.0% 78.6%
1ji6A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 38.0 3.29e-01 81.2% 54.9%
5ccbA01 3.10.330.20 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.51 29.0 3.29e-01 91.7% 73.6%
3ciaA01 2.60.40.1730 Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain 0.51 44.0 3.65e-01 100.0% 93.5%
1vavA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 41.0 3.23e-01 90.6% 90.5%
2e8yA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 40.0 4.06e-01 100.0% 89.5%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1173200 10.35.1.1 ↗ beta sandwiches › jelly-roll › ER-derived vesicles protein Erv41p lumenal domain › ER-derived vesicles protein Erv41p lumenal domain › COPIIcoated_ERV,ERGIC_N 0.67 61.0 4.66e-01 100.0% 87.5%
3367603 10.35.1.1 ↗ beta sandwiches › jelly-roll › ER-derived vesicles protein Erv41p lumenal domain › ER-derived vesicles protein Erv41p lumenal domain › COPIIcoated_ERV,ERGIC_N 0.67 60.0 4.67e-01 100.0% 89.5%
3796900 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.66 51.0 4.74e-01 81.2% 66.4%
4954768 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 46.0 4.90e-01 100.0% 83.5%
3266313 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.64 44.0 3.61e-01 81.2% 37.8%
3376331 10.35.1.2 ↗ beta sandwiches › jelly-roll › ER-derived vesicles protein Erv41p lumenal domain › ER-derived vesicles protein Erv41p lumenal domain › COPIIcoated_ERV 0.62 55.0 4.47e-01 100.0% 93.7%
1331 10.12.1.31 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_5 0.62 43.0 3.79e-01 84.4% 48.6%
4157339 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.62 44.0 4.11e-01 75.0% 78.3%
5027230 10.7.1.0 ↗ beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 0.60 42.0 4.50e-01 82.3% 83.5%
3999000 10.7.1.0 ↗ beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 0.60 41.0 4.37e-01 81.2% 81.2%
3994140 10.4.1.0 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.59 37.0 3.80e-01 81.2% 64.2%
4942565 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 46.0 4.75e-01 95.8% 87.8%
5044223 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 44.0 4.39e-01 81.2% 84.0%
4152420 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 42.0 4.03e-01 100.0% 66.4%
3973162 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 45.0 3.85e-01 83.3% 80.0%
5033863 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 43.0 3.77e-01 79.2% 70.3%
3344184 11.1.1.652 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ribophorin_II_3rd 0.57 47.0 4.14e-01 91.7% 60.7%
3229647 10.4.1.9 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB_2 0.57 37.0 3.93e-01 100.0% 75.3%
3227069 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 43.0 4.18e-01 82.3% 77.3%
3268819 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 42.0 4.36e-01 100.0% 84.4%
3607484 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 42.0 3.56e-01 80.2% 50.9%
3959310 10.39.1.1 ↗ beta sandwiches › jelly-roll › Soluble domain of MmpS4 › Soluble domain of MmpS4 › Mycobact_memb 0.56 45.0 4.58e-01 100.0% 91.4%
5036069 4004.1.1.0 ↗ beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like 0.56 49.0 4.33e-01 100.0% 91.0%
3855544 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 41.0 3.95e-01 80.2% 71.3%
5041352 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.55 41.0 3.79e-01 79.2% 60.8%
2507084 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.55 42.0 2.73e-01 83.3% 35.3%
4282521 11.1.1.652 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ribophorin_II_3rd 0.55 45.0 4.08e-01 91.7% 68.1%
3287117 10.39.1.1 ↗ beta sandwiches › jelly-roll › Soluble domain of MmpS4 › Soluble domain of MmpS4 › Mycobact_memb 0.55 43.0 4.55e-01 100.0% 98.8%
3903107 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.54 38.0 3.89e-01 81.2% 75.8%
4927992 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.54 39.0 4.01e-01 76.0% 82.2%
4955729 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 40.0 3.39e-01 81.2% 67.6%
4097408 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 4.28e-01 100.0% 87.4%
1546392 10.2.1.66 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › STIV-like_capsid 0.53 39.0 3.29e-01 80.2% 59.4%
3893503 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.53 34.0 3.38e-01 93.8% 62.0%
4311256 10.32.1.18 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Endotoxin_C 0.53 41.0 3.51e-01 85.4% 81.2%
4995634 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 41.0 3.74e-01 100.0% 62.3%
3252189 11.1.1.914 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF29344 0.52 33.0 3.27e-01 94.8% 60.0%
4945064 10.1.2.192 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) › Big_7 0.52 39.0 3.74e-01 81.2% 79.1%
3966483 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.52 38.0 3.67e-01 80.2% 92.2%
5079217 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 4.00e-01 100.0% 78.1%
3214460 10.4.1.9 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB_2 0.52 41.0 3.81e-01 85.4% 69.2%
3223111 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.51 41.0 4.12e-01 97.9% 85.0%
3969586 10.32.1.27 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › 7TMR-DISMED2 0.50 44.0 3.80e-01 96.9% 82.7%
4456818 11.1.1.335 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GlgB_N 0.50 36.0 3.67e-01 100.0% 76.8%
D3 high residues 179-334
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tviA01 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.52 42.0 3.59e-01 88.5% 99.6%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.52 30.0 3.65e-01 84.6% 88.9%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3716432 1075.4.1.2 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane_2 0.57 41.0 3.16e-01 73.7% 90.6%
D4 high residues 374-455_523-549
PDB