←Back to structures

SR-VP_0-2_scaffold_141_2071242_prodigal-single.1__X__X__00417

Bact-Vir

SR-VP_0-2_scaffold_141_2071242_prodigal-single.1__X__X__00417

Identity

Kingdom:
phage

Quality

83.6 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 110-197
PDB
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p4tA00 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.71 62.0 5.10e-01 95.5% 97.4%
1bxwA00 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.66 59.0 4.77e-01 100.0% 100.0%
6x1kA01 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.64 54.0 4.99e-01 94.3% 100.0%
2vdfA00 2.40.128.100 Mainly Beta › Beta Barrel › Lipocalin › OPCA outer membrane adhesin/invasin 0.63 54.0 4.07e-01 96.6% 100.0%
3n91A02 2.40.128.420 Mainly Beta › Beta Barrel › Lipocalin › 0.61 52.0 4.60e-01 96.6% 97.1%
1qj8A00 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.61 54.0 4.59e-01 100.0% 97.3%
3v8uA04 2.40.160.90 Mainly Beta › Beta Barrel › Porin › 0.61 54.0 4.64e-01 100.0% 98.6%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 54.0 4.68e-01 100.0% 97.1%
4gf4A00 2.40.160.180 Mainly Beta › Beta Barrel › Porin › Carbohydrate-selective porin OprB 0.60 50.0 3.44e-01 90.9% 90.0%
4xmeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 53.0 4.18e-01 100.0% 67.9%
1pbyA02 2.40.128.120 Mainly Beta › Beta Barrel › Lipocalin › Quinohemoprotein amine dehydrogenase alpha subunit, domain 2 0.59 54.0 5.06e-01 100.0% 97.2%
7wa9A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 50.0 4.29e-01 93.2% 61.0%
1u17A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 52.0 4.10e-01 100.0% 69.2%
3bryA00 2.40.160.60 Mainly Beta › Beta Barrel › Porin › Outer membrane protein transport protein (OMPP1/FadL/TodX) 0.58 49.0 3.31e-01 97.7% 41.4%
3rwxA01 2.40.128.340 Mainly Beta › Beta Barrel › Lipocalin › 0.58 52.0 4.69e-01 100.0% 75.8%
2hboA01 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.58 40.0 3.46e-01 98.9% 46.6%
1jmxA02 2.40.128.120 Mainly Beta › Beta Barrel › Lipocalin › Quinohemoprotein amine dehydrogenase alpha subunit, domain 2 0.58 51.0 4.82e-01 100.0% 99.1%
4meeA00 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.57 49.0 3.40e-01 94.3% 89.8%
3bdrA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 50.0 4.19e-01 100.0% 96.8%
2porA00 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.56 46.0 3.24e-01 92.0% 97.7%
4e1sA00 2.40.160.160 Mainly Beta › Beta Barrel › Porin › Inverse autotransporter, beta-domain 0.56 49.0 3.56e-01 95.5% 95.0%
1uynX00 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.55 49.0 3.47e-01 100.0% 86.7%
1vyfA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 49.0 4.25e-01 100.0% 97.8%
3ia8A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 48.0 3.99e-01 100.0% 81.5%
4fpwB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 43.0 3.51e-01 94.3% 46.6%
5e1qB01 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.54 45.0 3.27e-01 95.5% 80.4%
4frxA01 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.54 45.0 3.00e-01 95.5% 42.4%
2xqyA01 3.30.500.50 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.54 38.0 3.01e-01 79.5% 36.5%
1o8vA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 47.0 4.15e-01 100.0% 98.5%
5dl7A00 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.53 44.0 2.95e-01 94.3% 36.6%
2vckA00 3.40.1500.20 Alpha Beta › 3-Layer(aba) Sandwich › oxygen-dependent coproporphyrinogen oxidase › 0.53 38.0 2.98e-01 77.3% 36.1%
1c8uA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.52 36.0 3.28e-01 96.6% 53.0%
4gakA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.52 37.0 2.78e-01 76.1% 75.6%
3djwA00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 36.0 3.59e-01 75.0% 91.6%
4epaA00 2.40.170.20 Mainly Beta › Beta Barrel › Maltoporin; Chain A › TonB-dependent receptor, beta-barrel domain 0.51 40.0 2.49e-01 88.6% 36.2%
2h36X00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 36.0 3.41e-01 75.0% 81.5%
4bumX00 2.40.160.10 Mainly Beta › Beta Barrel › Porin › Porin 0.51 42.0 3.01e-01 93.2% 94.7%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3165475 5084.1.1.4 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › Opacity 0.73 63.0 5.13e-01 93.2% 99.4%
3506244 5084.1.1.16 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › Ail_Lom 0.70 61.0 4.84e-01 95.5% 98.9%
3385673 5084.1.1.10 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › OMP_b-brl 0.69 60.0 4.95e-01 97.7% 69.4%
3968806 5084.5.1.68 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › PF27733 0.66 56.0 4.23e-01 92.0% 99.5%
3060391 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.65 60.0 5.43e-01 100.0% 96.5%
3970312 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.63 56.0 4.48e-01 100.0% 98.3%
2715752 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.63 56.0 5.03e-01 100.0% 93.5%
4961667 5084.1.1.45 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › PF26421 0.62 54.0 4.98e-01 96.6% 91.3%
None — 0.61 54.0 4.59e-01 100.0% 97.3%
3250134 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.60 55.0 4.92e-01 100.0% 93.3%
3964155 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.60 50.0 3.57e-01 92.0% 99.6%
3969607 5084.1.1.11 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › Phenol_MetA_deg 0.59 52.0 3.58e-01 97.7% 99.7%
4602917 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.59 51.0 3.45e-01 95.5% 83.9%
4086880 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.59 53.0 4.45e-01 100.0% 98.0%
4606189 5084.5.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin 0.58 51.0 3.42e-01 100.0% 94.9%
4310253 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.58 52.0 4.24e-01 98.9% 98.8%
4241521 5084.5.1.11 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › Porin_4 0.58 48.0 3.33e-01 90.9% 93.5%
4596124 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.58 52.0 4.19e-01 98.9% 99.4%
4677412 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.58 51.0 3.51e-01 100.0% 87.7%
4136961 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.58 52.0 4.15e-01 100.0% 97.1%
3974567 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.58 47.0 3.42e-01 90.9% 94.0%
4995046 12.3.1.15 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › AmyA-gluTrfs_C 0.57 47.0 3.31e-01 90.9% 79.5%
2103480 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.57 51.0 3.57e-01 100.0% 99.3%
4177915 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.57 51.0 4.15e-01 100.0% 98.8%
4294796 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.57 52.0 4.15e-01 100.0% 98.8%
3990703 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.57 50.0 4.07e-01 97.7% 68.5%
4248683 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.57 51.0 4.02e-01 100.0% 91.4%
4150627 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.57 51.0 3.52e-01 100.0% 87.0%
4362579 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.57 51.0 4.08e-01 100.0% 97.7%
4292366 9.1.1.14 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.57 51.0 4.01e-01 100.0% 97.3%
4643284 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.56 50.0 3.38e-01 96.6% 89.1%
3251788 9.1.1.37 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF6314 0.56 50.0 4.10e-01 100.0% 98.2%
885 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.55 49.0 3.47e-01 100.0% 86.7%
4199183 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.55 49.0 4.17e-01 100.0% 98.6%
3387368 5084.1.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like 0.55 47.0 3.43e-01 98.9% 56.4%
4591679 5084.5.1.18 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › BCSC_C 0.54 47.0 3.09e-01 93.2% 95.3%
4010676 5084.8.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Usher PapC translocation pore › Usher PapC translocation pore › Usher 0.54 46.0 2.95e-01 92.0% 20.5%
4669372 5084.3.1.1 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › Autotransporter 0.54 47.0 3.30e-01 100.0% 88.1%
3356246 5084.5.1.45 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › PF28482 0.53 42.0 3.18e-01 92.0% 35.0%
4184524 5084.5.1.18 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › BCSC_C 0.53 45.0 3.06e-01 95.5% 96.2%
3387574 5084.3.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter 0.52 46.0 3.20e-01 100.0% 82.3%
4273160 5084.5.1.10 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › MDM10 0.51 42.0 2.81e-01 93.2% 23.1%
3935761 5084.5.1.3 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › Porin_3 0.51 42.0 2.99e-01 92.0% 94.0%
3804993 5084.5.1.0 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin 0.51 42.0 2.85e-01 90.9% 31.2%
D2 medium residues 52-106
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3oe3C00 2.40.128.200 Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor 0.76 42.0 3.51e-01 81.8% 33.0%
2af5A01 2.40.128.160 Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) 0.65 41.0 4.13e-01 85.5% 63.0%
1auiA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.63 54.0 3.31e-01 100.0% 70.9%
5bkaE01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 48.0 3.71e-01 92.7% 38.6%
2q7nA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 45.0 4.03e-01 89.1% 70.0%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.56 30.0 3.21e-01 78.2% 54.3%
3d2uA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 44.0 3.70e-01 85.5% 70.7%
4iqzB01 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.55 41.0 3.80e-01 87.3% 61.1%
3uezC02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 44.0 3.96e-01 92.7% 66.3%
4q34A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 42.0 2.68e-01 89.1% 28.0%
1wibA00 3.30.1550.10 Alpha Beta › 2-Layer Sandwich › Ribosomal protein L11, N-terminal domain › Ribosomal protein L11/L12, N-terminal domain 0.54 44.0 3.71e-01 89.1% 77.2%
4bfiB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 38.0 3.35e-01 89.1% 48.9%
4f80A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 34.0 2.96e-01 87.3% 38.7%
1lc0A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 34.0 2.68e-01 89.1% 26.5%
4eo0A00 3.30.110.160 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.51 39.0 3.39e-01 96.4% 78.3%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1066050 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 41.0 3.16e-01 89.1% 29.5%
4519677 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.62 48.0 3.19e-01 87.3% 98.4%
3529796 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.62 40.0 2.78e-01 89.1% 20.6%
5013350 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.58 46.0 3.38e-01 90.9% 46.3%
3257740 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 48.0 4.04e-01 94.5% 67.4%
3988557 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.57 33.0 2.14e-01 70.9% 11.5%
4982277 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.55 38.0 3.70e-01 89.1% 64.6%
4245082 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.54 39.0 2.64e-01 80.0% 40.9%
4965185 7099.1.1.1 ↗ a+b complex topology › VP5 N-terminal domain › VP5 N-terminal domain › VP5 N-terminal domain › Viral_env_HRPV 0.53 42.0 2.70e-01 96.4% 65.5%
3804439 2.1.1.23 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › POT1 0.53 37.0 2.80e-01 87.3% 28.0%
3788285 395.1.1.4 ↗ few secondary structure elements › Midkine-related › Midkine-related › Midkine-related › Flocculin_t3 0.52 39.0 4.10e-01 83.6% 100.0%
4010788 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.51 40.0 2.79e-01 96.4% 62.9%
4992891 331.16.1.1 ↗ a+b two layers › TBP-like › TA0095-like › TA0095-like › DUF5611 0.51 39.0 3.31e-01 87.3% 50.0%