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pre4_saliva_scaffold_3_prodigal-single.1__X__X__00165

Bact-Vir

pre4_saliva_scaffold_3_prodigal-single.1__X__X__00165

Identity

Kingdom:
phage

Quality

79.0 mean pLDDT

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 21-143
PDB
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ooiA01 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.67 60.0 5.59e-01 98.4% 94.2%
3hlzB01 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.64 51.0 4.87e-01 91.9% 72.9%
3f8lB00 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.62 56.0 5.06e-01 99.2% 89.2%
4gn2A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.55 38.0 3.04e-01 70.7% 90.0%
2fpnA01 3.30.2030.10 Alpha Beta › 2-Layer Sandwich › TBP-like › YwmB-like 0.55 34.0 3.32e-01 97.6% 55.0%
3fidA00 2.40.128.140 Mainly Beta › Beta Barrel › Lipocalin › Outer membrane protein 0.55 41.0 3.21e-01 81.3% 84.8%
2yh6D00 3.30.530.50 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › 0.54 36.0 3.78e-01 71.5% 74.5%
2g16B00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.54 41.0 3.72e-01 86.2% 59.5%
3d9rB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 34.0 3.38e-01 97.6% 60.9%
3n91A02 2.40.128.420 Mainly Beta › Beta Barrel › Lipocalin › 0.51 38.0 3.72e-01 78.0% 84.6%
4e3eA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 43.0 3.19e-01 94.3% 89.5%
5uj1A03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.51 41.0 3.74e-01 99.2% 63.7%
2uvaG08 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 46.0 3.47e-01 99.2% 43.7%
1nrfA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 42.0 3.33e-01 89.4% 86.2%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3474976 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.66 38.0 3.72e-01 92.7% 53.1%
4948943 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.65 35.0 4.30e-01 96.7% 82.1%
3789178 5.1.2.20 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BMT 0.65 46.0 2.98e-01 73.2% 88.0%
4976527 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.63 42.0 4.23e-01 97.6% 67.2%
5047426 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.63 37.0 3.87e-01 78.0% 63.5%
3278991 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.61 55.0 4.92e-01 95.9% 80.6%
5047928 331.9.1.0 ↗ a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.61 34.0 3.48e-01 92.7% 54.2%
3785861 5.1.2.20 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BMT 0.59 42.0 2.77e-01 97.6% 17.5%
3957467 222.1.1.7 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › FcoT 0.57 44.0 3.94e-01 83.7% 86.0%
3962890 222.1.1.0 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase 0.56 38.0 3.81e-01 95.1% 67.2%
3700334 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.55 43.0 3.84e-01 82.9% 61.1%
3290484 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.54 47.0 4.18e-01 94.3% 77.1%
3720671 222.1.1.27 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › PF27832 0.54 48.0 4.29e-01 100.0% 87.2%
3631673 222.1.1.27 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › PF27832 0.53 48.0 4.26e-01 100.0% 84.4%
3959606 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.53 48.0 4.27e-01 96.7% 73.4%
3726880 4252.1.1.12 ↗ beta barrels › AttH-like › AttH-like › AttH-like › DUF7064 0.52 38.0 3.85e-01 75.6% 86.4%
3724576 4252.1.1.12 ↗ beta barrels › AttH-like › AttH-like › AttH-like › DUF7064 0.52 38.0 3.88e-01 88.6% 79.2%
3202278 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.52 39.0 3.56e-01 93.5% 58.2%
5048993 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 41.0 4.06e-01 92.7% 80.0%
4959178 4252.1.1.12 ↗ beta barrels › AttH-like › AttH-like › AttH-like › DUF7064 0.51 37.0 3.75e-01 75.6% 90.8%
5057736 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.51 35.0 3.41e-01 82.1% 63.7%
4642761 331.22.1.2 ↗ a+b two layers › TBP-like › Outer membrane protein assembly factor BamC › Outer membrane protein assembly factor BamC › PF29358 0.51 41.0 3.44e-01 87.0% 54.3%
3618860 223.1.1.29 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_11 0.51 32.0 3.14e-01 100.0% 55.7%
3594550 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 39.0 3.60e-01 83.7% 83.0%
3460348 708.1.1.1 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › NAM 0.50 41.0 3.78e-01 91.9% 68.4%
3606232 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.50 34.0 3.72e-01 82.9% 83.5%
3285693 222.1.1.7 ↗ a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › FcoT 0.50 45.0 4.03e-01 100.0% 95.4%
D2 high residues 145-217
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1v4aA01 1.10.4050.10 Mainly Alpha › Orthogonal Bundle › Nucleotidyltransferase substrate binding subunit/domain fold › Glutamine synthase adenylyltransferase GlnE 0.68 43.0 3.71e-01 74.0% 43.1%
3k4oA00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.65 50.0 3.33e-01 80.8% 39.2%
3fhnA01 6.10.280.210 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain A 0.61 42.0 3.10e-01 72.6% 28.3%
1w23A02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.61 49.0 4.43e-01 89.0% 90.3%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 42.0 3.83e-01 71.2% 70.2%
2kx2A00 3.30.780.30 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › 0.60 43.0 4.05e-01 79.5% 95.8%
2yqrA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.60 50.0 4.51e-01 94.5% 95.1%
3cxjA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.60 50.0 4.11e-01 95.9% 93.8%
1z1nX01 3.90.10.10 Alpha Beta › Alpha-Beta Complex › Cytochrome C3 › Cytochrome C3 0.55 46.0 4.22e-01 95.9% 76.8%
3hj4A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.55 38.0 3.26e-01 75.3% 56.5%
4a17H02 3.30.60.300 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.54 22.0 2.97e-01 83.6% 69.2%
2yykA01 1.10.3140.10 Mainly Alpha › Orthogonal Bundle › 4-hydroxybutyryl-coa dehydratase, domain 1 › 4-hydroxybutyryl-coa dehydratase, domain 1 0.52 39.0 3.17e-01 79.5% 70.1%
1k8kD02 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 41.0 3.61e-01 98.6% 93.1%
6nyyE01 1.20.58.760 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Peptidase M41 0.50 41.0 3.13e-01 89.0% 38.7%
7dklA02 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 0.50 33.0 3.16e-01 87.7% 55.6%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5051540 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.65 56.0 4.38e-01 98.6% 62.4%
3500240 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.64 57.0 5.01e-01 100.0% 88.2%
3728757 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.63 50.0 4.92e-01 87.7% 97.5%
3998932 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 45.0 3.42e-01 75.3% 37.6%
3501531 3016.1.1.4 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Pyridoxal_deC 0.63 55.0 4.58e-01 98.6% 82.2%
4427482 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.63 54.0 4.77e-01 97.3% 88.2%
5028061 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.63 45.0 4.21e-01 75.3% 72.2%
4424185 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.62 53.0 4.68e-01 95.9% 100.0%
4244236 3681.1.1.0 ↗ a+b complex topology › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit › Helical hairpin insertion in E. coli DNA-directed RNA polymerase beta subunit 0.62 44.0 3.84e-01 75.3% 78.2%
3617823 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.61 51.0 4.74e-01 93.2% 94.6%
4070661 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.61 46.0 4.83e-01 79.5% 100.0%
4028685 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.61 44.0 3.84e-01 76.7% 63.6%
3244401 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.60 43.0 3.70e-01 75.3% 57.4%
3009971 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.59 43.0 4.07e-01 76.7% 92.0%
4126378 621.1.1.3 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Sey1_3HB 0.59 43.0 3.72e-01 76.7% 53.0%
3468013 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.59 42.0 3.82e-01 75.3% 57.0%
4339431 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.59 44.0 4.60e-01 80.8% 89.2%
5040538 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 43.0 4.13e-01 78.1% 98.8%
3614055 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.58 52.0 3.76e-01 100.0% 78.1%
3540760 633.21.1.10 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › MARVEL 0.58 49.0 3.84e-01 93.2% 84.5%
4163138 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.58 45.0 4.75e-01 83.6% 100.0%
4490179 109.4.1.1289 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30856 0.58 42.0 2.67e-01 76.7% 23.2%
4279367 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.58 44.0 4.36e-01 86.3% 96.2%
3887481 192.13.1.0 ↗ alpha bundles › Long alpha-hairpin › ISY1 N-terminal domain-like › ISY1 N-terminal domain-like 0.57 41.0 3.66e-01 75.3% 61.0%
1262064 139.1.1.4 ↗ few secondary structure elements › Multiheme cytochromes › Cytochrome c3-like › Cytochrome c3-like › Cytochrome_C7 0.55 46.0 4.04e-01 95.9% 66.7%
3799886 304.8.1.49 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.55 42.0 4.32e-01 83.6% 90.0%
3761667 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.55 39.0 3.80e-01 75.3% 68.8%
3252459 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.54 40.0 2.98e-01 79.5% 58.5%
3611776 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.54 45.0 3.59e-01 91.8% 47.1%
3742809 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 45.0 3.69e-01 94.5% 80.0%
4978597 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.53 47.0 3.50e-01 100.0% 63.8%
3911302 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.52 41.0 4.30e-01 89.0% 100.0%
3801312 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.51 42.0 4.05e-01 100.0% 100.0%
3821912 109.4.1.257 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PDS5 0.51 45.0 3.08e-01 100.0% 34.6%
3946113 241.7.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YgaC/TfoX-N like › YgaC/TfoX-N like › TfoX_N 0.51 41.0 3.68e-01 89.0% 91.4%
3213629 2002.1.1.111 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › HpcH_HpaI 0.51 41.0 2.68e-01 87.7% 91.6%
3575264 604.12.1.61 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Clc-like 0.50 44.0 3.85e-01 100.0% 88.7%