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pre4_saliva_scaffold_3_prodigal-single.1__X__X__00004
Bact-Virpre4_saliva_scaffold_3_prodigal-single.1__X__X__00004
Identity
- Kingdom:
- phage
Quality
88.8
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 2-62
Domain cluster:
rep: term2_saliva_scaffold_1_prodigal-single.1__X__X__00196__D2-61
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1pcfA00 | 2.30.31.10 | Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A | 0.56 | 36.0 | 3.51e-01 | 96.7% | 59.1% |
| 3pnnA00 | 3.90.550.10 | Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 0.51 | 42.0 | 2.82e-01 | 100.0% | 95.0% |
| 5gxuB01 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.51 | 37.0 | 3.01e-01 | 78.7% | 85.2% |
| 3l50A00 | 3.40.20.10 | Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin | 0.51 | 41.0 | 3.31e-01 | 95.1% | 67.6% |
| 5oomJ01 | 3.30.1550.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal protein L11, N-terminal domain › Ribosomal protein L11/L12, N-terminal domain | 0.50 | 38.0 | 3.79e-01 | 88.5% | 95.5% |
ECOD (8)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3480463 | 389.1.1.0 ↗ | few secondary structure elements › EGF-like › EGF-related › EGF/Laminin | 0.67 | 29.0 | 3.73e-01 | 91.8% | 68.6% |
| 4937917 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.65 | 48.0 | 5.25e-01 | 88.5% | 96.0% |
| 5056867 | 2.14.1.1 ↗ | beta barrels › OB-fold › HupF/HypC-like › HupF/HypC-like › HupF_HypC | 0.58 | 44.0 | 4.76e-01 | 88.5% | 98.0% |
| 3924924 | 387.1.7.0 ↗ | few secondary structure elements › omega toxin-like › omega toxin-related › Evasin-3 knottin scaffold | 0.58 | 29.0 | 3.53e-01 | 95.1% | 74.3% |
| 3761880 | 356.1.1.0 ↗ | few secondary structure elements › PMP inhibitors › PMP inhibitors › PMP inhibitors | 0.56 | 26.0 | 3.22e-01 | 88.5% | 92.0% |
| 5029523 | 1.1.3.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › AbrB | 0.56 | 40.0 | 4.43e-01 | 100.0% | 97.9% |
| 3612374 | 7575.1.1.9 ↗ | a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like › CHAT | 0.54 | 44.0 | 3.01e-01 | 95.1% | 84.5% |
| 5045871 | 2.1.1.17 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_aCoA_assoc | 0.53 | 42.0 | 4.02e-01 | 85.2% | 94.3% |
D2
high
residues 68-157
Domain cluster:
representative
CATH (26)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3a06B03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.67 | 50.0 | 5.14e-01 | 90.0% | 80.7% |
| 6h7bA01 | 1.10.1900.10 | Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein | 0.67 | 47.0 | 5.11e-01 | 100.0% | 89.2% |
| 1s3qG00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.65 | 44.0 | 3.55e-01 | 70.0% | 56.4% |
| 3hmfA00 | 1.20.920.10 | Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like | 0.64 | 47.0 | 4.30e-01 | 75.6% | 100.0% |
| 1wp7A00 | 1.10.287.770 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like | 0.64 | 38.0 | 4.44e-01 | 70.0% | 84.4% |
| 2xokP00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.63 | 41.0 | 4.45e-01 | 74.4% | 81.1% |
| 3s84A02 | 1.20.120.20 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein | 0.62 | 55.0 | 4.57e-01 | 96.7% | 83.4% |
| 2w0gA00 | 1.20.58.610 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Cdc37, Hsp90 binding domain | 0.60 | 47.0 | 4.21e-01 | 85.6% | 60.5% |
| 1lb3A00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.59 | 44.0 | 3.63e-01 | 78.9% | 78.4% |
| 2yjkC00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.58 | 43.0 | 3.58e-01 | 76.7% | 71.3% |
| 2yw6B00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.58 | 42.0 | 3.60e-01 | 77.8% | 75.3% |
| 2c2jA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.57 | 42.0 | 3.50e-01 | 77.8% | 68.5% |
| 2uuiA00 | 1.20.120.550 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain | 0.57 | 50.0 | 4.17e-01 | 97.8% | 65.8% |
| 2q0oC00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.56 | 39.0 | 3.99e-01 | 71.1% | 74.4% |
| 1vjxA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.54 | 43.0 | 3.68e-01 | 87.8% | 83.9% |
| 2iu5B00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.54 | 48.0 | 3.86e-01 | 100.0% | 88.1% |
| 6iknD01 | 1.20.1270.60 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain | 0.53 | 41.0 | 2.97e-01 | 83.3% | 81.3% |
| 5vjcA00 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.53 | 30.0 | 2.20e-01 | 74.4% | 18.7% |
| 3bniB00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.53 | 48.0 | 3.86e-01 | 100.0% | 87.1% |
| 1yuzB01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.52 | 42.0 | 3.64e-01 | 86.7% | 85.5% |
| 1tqgA00 | 1.20.120.160 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain | 0.52 | 39.0 | 3.75e-01 | 81.1% | 98.1% |
| 1kxpD02 | 1.10.246.10 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.52 | 34.0 | 3.49e-01 | 73.3% | 68.2% |
| 1wa8A00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.52 | 37.0 | 3.62e-01 | 75.6% | 70.7% |
| 3g0oA02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.51 | 42.0 | 3.76e-01 | 87.8% | 81.0% |
| 2nutB01 | 1.20.120.730 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Sec23/Sec24 helical domain | 0.51 | 34.0 | 2.93e-01 | 70.0% | 52.3% |
| 5ts9B00 | 1.20.59.10 | Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase | 0.50 | 42.0 | 3.48e-01 | 92.2% | 57.8% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3968369 | 4168.1.1.1 ↗ | alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › HAMP | 0.71 | 30.0 | 3.60e-01 | 70.0% | 58.3% |
| 3580117 | 192.4.1.0 ↗ | alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) | 0.67 | 40.0 | 4.36e-01 | 81.1% | 72.0% |
| 3170882 | 603.1.1.210 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Tmemb_170 | 0.65 | 58.0 | 5.31e-01 | 100.0% | 85.0% |
| 3595289 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.65 | 40.0 | 3.99e-01 | 74.4% | 58.9% |
| 3783238 | 5041.1.1.15 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › Tmemb_170 | 0.64 | 57.0 | 5.32e-01 | 100.0% | 82.6% |
| 3461384 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.63 | 40.0 | 3.68e-01 | 73.3% | 47.5% |
| 3629156 | 633.1.1.0 ↗ | alpha bundles › Bromodomain-like › Bromodomain › Bromodomain | 0.62 | 46.0 | 4.08e-01 | 76.7% | 88.0% |
| 3277846 | 142.1.1.3 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 | 0.62 | 49.0 | 4.76e-01 | 100.0% | 77.0% |
| 3615974 | 3755.3.1.288 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › LMBR1 | 0.62 | 40.0 | 3.49e-01 | 70.0% | 45.1% |
| 4498700 | 142.1.1.3 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 | 0.61 | 49.0 | 4.76e-01 | 100.0% | 79.0% |
| 3216068 | 198.1.1.0 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like | 0.60 | 37.0 | 4.01e-01 | 88.9% | 73.1% |
| 3940940 | 3755.3.1.288 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › LMBR1 | 0.60 | 41.0 | 3.62e-01 | 70.0% | 52.0% |
| 4623581 | 142.1.1.3 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 | 0.59 | 49.0 | 4.68e-01 | 100.0% | 77.1% |
| 4975294 | 601.28.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like | 0.58 | 39.0 | 3.98e-01 | 70.0% | 100.0% |
| 4955156 | 563.2.1.0 ↗ | alpha bundles › ATPD N-terminal domain-like › Cas Cmr5-like › Cas Cmr5-like | 0.58 | 43.0 | 3.71e-01 | 81.1% | 84.7% |
| 3188843 | 604.5.1.8 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › ArAE_2 | 0.57 | 44.0 | 3.30e-01 | 82.2% | 74.0% |
| 3259769 | 5050.1.1.1 ↗ | alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr | 0.56 | 36.0 | 3.23e-01 | 78.9% | 44.6% |
| 3697063 | 109.4.1.328 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF2428 | 0.55 | 35.0 | 2.81e-01 | 76.7% | 32.6% |
| 3964052 | 7014.1.1.2 ↗ | alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › TauE | 0.55 | 41.0 | 3.80e-01 | 98.9% | 63.6% |
| 3384991 | 109.4.1.1739 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cohesin_HEAT, Nipped-B_C, PDS5 | 0.55 | 40.0 | 2.31e-01 | 76.7% | 10.9% |
| 4095452 | 3755.3.1.299 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF445 | 0.54 | 43.0 | 3.45e-01 | 85.6% | 70.6% |
| 3627089 | 198.1.1.0 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like | 0.54 | 34.0 | 3.65e-01 | 92.2% | 72.5% |
| 3955184 | 3831.1.1.1 ↗ | alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › LprI | 0.54 | 40.0 | 4.13e-01 | 91.1% | 84.7% |
| 3594932 | 6158.1.1.0 ↗ | alpha bundles › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region › Nucleoporin p58/p45 helical region | 0.53 | 37.0 | 3.87e-01 | 78.9% | 76.5% |
| 3241046 | 633.6.1.2 ↗ | alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX | 0.52 | 38.0 | 3.14e-01 | 77.8% | 51.4% |
| 3275525 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.52 | 36.0 | 2.96e-01 | 73.3% | 46.5% |
| 5075988 | 150.1.1.1 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin | 0.51 | 45.0 | 3.73e-01 | 97.8% | 90.6% |
| 3291485 | 142.1.1.3 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 | 0.51 | 40.0 | 3.69e-01 | 100.0% | 65.0% |