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term4_saliva_scaffold_1_prodigal-single.1__X__X__00250

Bact-Vir

term4_saliva_scaffold_1_prodigal-single.1__X__X__00250

Identity

Kingdom:
phage

Quality

87.2 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 4-115
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2i2lA01 2.10.70.50 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.64 32.0 4.34e-01 82.1% 100.0%
3oymA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.61 38.0 4.58e-01 97.3% 98.6%
2gfaB01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.61 34.0 4.46e-01 98.2% 100.0%
1sg5A01 2.30.30.400 Mainly Beta › Roll › SH3 type barrels. › Rof-like 0.59 37.0 4.25e-01 95.5% 90.9%
1c8zA00 3.20.90.10 Alpha Beta › Alpha-Beta Barrel › Tubby Protein; Chain A › Tubby Protein; Chain A 0.58 41.0 3.12e-01 73.2% 87.5%
1a15A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 28.0 3.48e-01 78.6% 76.1%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.57 36.0 4.27e-01 92.9% 98.6%
3askA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 32.0 4.03e-01 92.0% 100.0%
2jmbA00 2.40.128.290 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein family Atu4866 0.54 37.0 4.27e-01 79.5% 100.0%
2qggA02 2.30.30.240 Mainly Beta › Roll › SH3 type barrels. › PRC-barrel domain 0.54 35.0 3.89e-01 100.0% 88.0%
2h1eA02 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 26.0 3.69e-01 72.3% 100.0%
2gtlN02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.52 44.0 3.86e-01 94.6% 77.6%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 27.0 3.42e-01 87.5% 93.2%
1mdcA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 41.0 3.91e-01 85.7% 100.0%
1fx0B01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.51 35.0 4.04e-01 100.0% 100.0%
1vyfA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 40.0 3.83e-01 86.6% 96.3%
6c1zA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 40.0 3.80e-01 86.6% 98.6%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4929725 375.1.1.289 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF5679 0.63 28.0 4.02e-01 75.9% 100.0%
4379563 375.1.1.289 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF5679 0.61 27.0 3.70e-01 75.9% 93.3%
3585538 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.61 37.0 3.89e-01 92.0% 67.0%
3495447 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.60 35.0 3.44e-01 92.0% 53.3%
4476649 219.1.1.8 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › NLPC_P60 0.59 37.0 3.54e-01 99.1% 51.9%
3491615 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.59 35.0 2.70e-01 92.0% 25.6%
3648661 6.1.1.25 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › DUF569 0.59 51.0 4.47e-01 92.9% 96.2%
3793962 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.57 34.0 3.69e-01 92.0% 71.1%
3256432 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 30.0 3.82e-01 96.4% 93.3%
4524276 286.1.1.4 ↗ a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Pro_racemase 0.57 42.0 3.08e-01 78.6% 86.3%
4104219 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.54 32.0 3.92e-01 100.0% 100.0%
4345080 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.54 30.0 3.72e-01 80.4% 92.3%
3939474 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.53 43.0 3.96e-01 87.5% 98.6%
164975 4.6.1.6 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC_RimM 0.53 34.0 3.88e-01 96.4% 90.2%
3408236 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.52 37.0 3.67e-01 85.7% 67.2%
4989092 223.1.1.25 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_9 0.52 36.0 3.70e-01 83.0% 75.2%
3426443 331.4.1.2 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.51 35.0 3.49e-01 93.8% 65.8%
3588972 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 27.0 3.48e-01 79.5% 100.0%
3488114 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 32.0 3.19e-01 95.5% 57.5%
3490245 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 36.0 4.00e-01 92.0% 91.1%
4971791 10.17.1.1 ↗ beta sandwiches › jelly-roll › Acetamidase/Formamidase-like › Acetamidase/Formamidase-like › FmdA_AmdA 0.51 44.0 3.54e-01 95.5% 77.8%
4072878 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.51 33.0 3.83e-01 98.2% 92.5%
3520079 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.51 38.0 3.78e-01 85.7% 77.4%
4054448 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.50 27.0 3.16e-01 96.4% 77.1%
4206331 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.50 28.0 3.29e-01 80.4% 80.0%
D2 high residues 120-206
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1dowA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.77 62.0 4.69e-01 87.4% 48.8%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.74 57.0 5.39e-01 82.8% 97.1%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.73 64.0 4.87e-01 95.4% 92.5%
2okuA00 1.20.120.470 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Acyl-CoA dehydrogenase, C-terminal domain 0.72 57.0 5.12e-01 85.1% 77.9%
4wpeA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.72 59.0 4.17e-01 89.7% 83.3%
1xvhB00 1.20.120.1850 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Ebh helix bundles repeating unit (S and A modules) 0.71 58.0 5.27e-01 89.7% 71.2%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.69 55.0 5.58e-01 85.1% 100.0%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.69 53.0 5.56e-01 81.6% 100.0%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.68 48.0 4.98e-01 74.7% 100.0%
6lumG01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.67 50.0 4.57e-01 78.2% 100.0%
1lj2A00 1.20.5.970 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Nonstructural RNA-binding protein 0.67 56.0 5.25e-01 90.8% 73.6%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 49.0 5.10e-01 78.2% 92.6%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.66 46.0 5.14e-01 71.3% 95.5%
6fakA02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.66 50.0 5.18e-01 81.6% 98.8%
6p73A02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.65 54.0 4.63e-01 93.1% 77.6%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.65 48.0 4.75e-01 80.5% 100.0%
4mk6A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.64 47.0 3.74e-01 78.2% 84.6%
7aalA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.64 55.0 4.00e-01 98.9% 89.5%
4ye6A01 1.10.8.1290 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1, domain 1 0.64 40.0 3.76e-01 74.7% 51.9%
2ot4A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 54.0 5.05e-01 94.3% 100.0%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 53.0 4.54e-01 93.1% 80.4%
3u9jA00 1.20.120.520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like 0.64 51.0 4.28e-01 89.7% 69.4%
5xnyA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.64 45.0 4.26e-01 74.7% 94.4%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.63 48.0 4.34e-01 82.8% 71.5%
1kxpD04 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.63 45.0 4.77e-01 75.9% 98.7%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.63 50.0 4.79e-01 85.1% 80.8%
7eq1R01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.62 48.0 3.37e-01 82.8% 70.0%
3d2eA06 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.62 46.0 4.26e-01 79.3% 72.6%
6lumD01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.62 51.0 4.54e-01 89.7% 97.6%
2g3vA00 1.20.120.1140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CAG pathogenicity island protein 13, CagS 0.61 48.0 3.96e-01 85.1% 58.4%
1j0tA00 1.10.2010.10 Mainly Alpha › Orthogonal Bundle › Crustacean CHH/MIH/GIH neurohormone › Crustacean CHH/MIH/GIH neurohormone 0.61 36.0 3.80e-01 71.3% 64.1%
2i10B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.61 45.0 3.99e-01 78.2% 63.2%
4heoA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.60 38.0 4.38e-01 73.6% 100.0%
1re5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.60 43.0 4.15e-01 75.9% 95.1%
1kxpD02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.57 44.0 4.42e-01 86.2% 93.2%
2qzcA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.57 41.0 3.12e-01 75.9% 98.1%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.56 42.0 3.79e-01 81.6% 71.2%
1vt0M02 1.10.1740.160 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.54 41.0 4.09e-01 82.8% 85.6%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4479999 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.75 65.0 6.09e-01 95.4% 89.5%
5065057 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.73 43.0 3.53e-01 86.2% 33.5%
3223457 101.1.2.661 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_9, POLR3C_WHD 0.71 49.0 3.40e-01 71.3% 95.7%
5058628 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.69 53.0 5.86e-01 79.3% 100.0%
3289819 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.69 62.0 4.39e-01 100.0% 93.6%
3959034 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.69 47.0 3.60e-01 70.1% 36.8%
3927466 5001.1.1.8 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › HlyIII 0.68 54.0 3.91e-01 88.5% 65.0%
4111221 3413.1.1.1 ↗ alpha bundles › Inositol phosphate phosphatase sopB N-terminal domain › Inositol phosphate phosphatase sopB N-terminal domain › Inositol phosphate phosphatase sopB N-terminal domain › IpgD 0.67 51.0 4.89e-01 81.6% 75.0%
4237257 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.66 50.0 4.96e-01 80.5% 97.8%
4146104 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.65 51.0 5.21e-01 85.1% 91.8%
3399406 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.64 52.0 4.02e-01 90.8% 79.0%
5008556 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.64 52.0 5.30e-01 88.5% 97.6%
3517647 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.63 45.0 4.53e-01 75.9% 94.4%
3428408 632.2.1.30 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › Auxin_canalis 0.63 50.0 5.26e-01 87.4% 100.0%
5056482 1075.5.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter 0.59 48.0 3.61e-01 87.4% 83.8%
3287143 191.1.1.49 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_13_2 0.56 43.0 3.97e-01 82.8% 67.8%
5025162 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.56 45.0 3.53e-01 86.2% 53.1%
4209030 4336.1.1.1 ↗ alpha duplicates or obligate multimers › YheA/YmcA-like › YheA/YmcA-like › YheA/YmcA-like › Com_YlbF 0.54 37.0 3.40e-01 70.1% 93.9%
4311864 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.52 38.0 3.47e-01 78.2% 62.5%