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pre3_saliva_scaffold_7_prodigal-single.1__X__X__00296

Bact-Vir

pre3_saliva_scaffold_7_prodigal-single.1__X__X__00296

Identity

Kingdom:
phage

Quality

85.7 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 medium residues 5-96
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1br0A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 55.0 5.08e-01 87.0% 90.8%
4gx0A01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 50.0 4.83e-01 76.1% 97.1%
2j0nB00 1.20.1710.10 Mainly Alpha › Up-down Bundle › IpaD-like › IpaD-like 0.68 51.0 4.04e-01 79.3% 93.6%
1oxjA02 1.25.40.170 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Smaug, PHAT domain 0.65 49.0 4.70e-01 81.5% 69.7%
1i6zA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.63 55.0 4.88e-01 97.8% 83.0%
4lp8A01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 46.0 4.41e-01 76.1% 97.1%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 48.0 4.50e-01 79.3% 75.2%
1qviA01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.62 47.0 4.32e-01 78.3% 95.7%
1biqA00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.62 52.0 3.54e-01 92.4% 44.4%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 46.0 4.42e-01 79.3% 87.7%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.60 46.0 5.03e-01 85.9% 100.0%
1oahA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.60 39.0 3.39e-01 70.7% 43.0%
2incA00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.59 50.0 3.28e-01 100.0% 93.7%
4ijaA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 40.0 3.38e-01 70.7% 66.7%
3k8pC01 1.20.58.1440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 45.0 4.37e-01 89.1% 85.7%
2yf4F00 1.10.3420.10 Mainly Alpha › Orthogonal Bundle › putative ntp pyrophosphohydrolase like fold › putative ntp pyrophosphohydrolase like domain 0.56 40.0 3.52e-01 75.0% 78.3%
2wpvE00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 46.0 3.22e-01 88.0% 38.9%
3r4iA02 6.10.140.960 Special › Helix non-globular › Helix Hairpins › 0.55 35.0 4.10e-01 71.7% 98.3%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 39.0 3.95e-01 79.3% 84.0%
7wivA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 44.0 3.17e-01 98.9% 81.1%
5fb0A02 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.52 39.0 3.64e-01 79.3% 67.0%
4akgA14 1.20.1280.160 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.51 36.0 3.48e-01 75.0% 100.0%
4iggB06 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 45.0 3.43e-01 100.0% 78.6%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3883762 3718.1.1.5 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › Meis_PKNOX_N 0.71 64.0 5.87e-01 100.0% 84.2%
4534540 3718.1.1.1 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › FliT 0.68 62.0 5.91e-01 100.0% 92.4%
4357963 3718.1.1.1 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › FliT 0.67 60.0 5.94e-01 100.0% 98.9%
3942411 604.39.1.9 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › Vut_1 0.65 56.0 4.31e-01 94.6% 79.5%
4385210 633.21.1.18 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom 0.65 58.0 4.66e-01 100.0% 79.5%
3643228 633.21.1.18 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom 0.65 59.0 4.90e-01 100.0% 77.2%
3978390 604.39.1.0 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.65 56.0 4.44e-01 94.6% 88.1%
4236657 633.21.1.18 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom 0.64 56.0 4.72e-01 95.7% 76.1%
3911146 4266.3.1.1 ↗ alpha bundles › Hyaluronidase domain-like › FLJ32549 domain-like › FLJ32549 domain-like › C12orf66_like 0.64 55.0 3.97e-01 96.7% 39.3%
3614763 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 44.0 4.07e-01 71.7% 95.8%
3523903 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 50.0 5.25e-01 87.0% 100.0%
3409680 6166.1.1.1 ↗ alpha bundles › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › ERG4_ERG24 0.64 49.0 3.81e-01 82.6% 72.2%
3595971 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 50.0 4.10e-01 87.0% 45.9%
3477764 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 51.0 3.75e-01 88.0% 36.9%
3698887 6110.1.1.1 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.63 56.0 3.49e-01 100.0% 41.7%
3991594 601.42.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle in ROQ domain › Helical bundle in ROQ domain 0.63 45.0 3.75e-01 76.1% 44.1%
3927740 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 0.63 49.0 3.85e-01 83.7% 73.3%
4075008 633.21.1.18 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom 0.63 56.0 4.64e-01 98.9% 82.4%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.62 46.0 4.20e-01 78.3% 93.3%
3249252 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.61 46.0 3.13e-01 79.3% 63.6%
4348151 109.4.1.1289 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30856 0.60 48.0 3.14e-01 87.0% 39.8%
3594965 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.60 46.0 3.94e-01 80.4% 58.6%
4086750 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 0.59 45.0 4.17e-01 100.0% 63.5%
4940192 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.59 45.0 4.19e-01 80.4% 93.0%
5062471 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 43.0 4.12e-01 79.3% 88.2%
3935332 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.58 44.0 3.90e-01 79.3% 63.1%
5001620 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.58 41.0 3.92e-01 72.8% 68.6%
4009921 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.58 46.0 3.34e-01 85.9% 84.9%
3808578 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.57 39.0 4.36e-01 70.7% 95.9%
4585740 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.55 42.0 4.33e-01 80.4% 90.0%
4214015 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.55 44.0 4.14e-01 84.8% 82.7%
4942502 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.55 45.0 3.56e-01 92.4% 83.9%
5042736 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.54 43.0 3.48e-01 87.0% 69.7%
3624736 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.54 43.0 2.68e-01 90.2% 61.5%
5022259 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.53 42.0 3.35e-01 84.8% 68.6%
3933566 601.42.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle in ROQ domain › Helical bundle in ROQ domain 0.53 49.0 3.90e-01 100.0% 97.1%
4963022 3236.1.1.23 ↗ alpha complex topology › Cation-proton antiporter › Cation-proton antiporter (CPA) › Cation-proton antiporter (CPA) › DUF3100 0.52 45.0 3.40e-01 100.0% 86.3%
3192317 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.52 33.0 2.42e-01 76.1% 24.1%
3743182 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.52 34.0 2.50e-01 77.2% 25.5%
4683221 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.52 38.0 2.63e-01 76.1% 43.2%
4593130 601.7.1.40 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Cas13a_C 0.51 39.0 2.76e-01 84.8% 75.8%
4573100 2484.1.1.206 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70, FGGY_C 0.50 37.0 2.96e-01 78.3% 61.1%
5005743 2484.1.1.87 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MreB-like_C 0.50 42.0 3.35e-01 91.3% 95.1%
D2 medium residues 97-191
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.64 44.0 4.62e-01 71.6% 81.4%
2n5hA00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.63 37.0 3.79e-01 70.5% 60.0%
3vkgB06 1.20.920.20 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › 0.61 50.0 3.67e-01 87.4% 80.4%
2j0wA02 1.20.120.1320 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartokinase, catalytic domain 0.57 40.0 4.06e-01 73.7% 86.0%
2hxoA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 40.0 3.51e-01 75.8% 81.2%
7csoA01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.54 44.0 3.32e-01 85.3% 53.6%
2lckA00 1.50.40.10 Mainly Alpha › Alpha/alpha barrel › Mitochondrial carrier fold › Mitochondrial carrier domain 0.54 42.0 2.99e-01 84.2% 47.8%
2l6xA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 40.0 2.96e-01 80.0% 95.7%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3216082 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.77 53.0 4.93e-01 71.6% 58.3%
4015631 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.73 43.0 3.65e-01 82.1% 37.3%
4420085 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 0.67 51.0 4.81e-01 86.3% 68.2%
3693429 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 46.0 3.45e-01 70.5% 59.5%
1684875 132.1.1.1 ↗ alpha bundles › ACP-like › Acyl-carrier protein (ACP) › Acyl-carrier protein (ACP) › PP-binding 0.63 37.0 3.79e-01 70.5% 60.0%
3957589 605.1.1.164 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF4191 0.60 48.0 4.69e-01 82.1% 97.0%
4156650 3254.1.1.1 ↗ alpha arrays › helical domain in flagellar biosynthesis protein flhA › helical domain in flagellar biosynthesis protein flhA › helical domain in flagellar biosynthesis protein flhA › FHIPEP 0.59 41.0 4.20e-01 73.7% 75.6%
3989431 1075.3.1.3 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1+OppC_N 0.55 45.0 3.25e-01 88.4% 41.8%
D3 medium residues 192-249
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1aipH03 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.78 51.0 5.32e-01 72.4% 75.0%
8a26A01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.78 53.0 3.32e-01 75.9% 14.9%
1xb2B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.71 48.0 4.78e-01 72.4% 68.3%
4bejB02 1.20.120.1240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Dynamin, middle domain 0.69 58.0 3.97e-01 100.0% 27.4%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3833759 3684.1.1.2 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1 0.82 68.0 4.44e-01 87.9% 25.6%
4028941 148.1.3.173 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_RFC1 0.82 54.0 5.12e-01 74.1% 57.1%
4827530 103.1.1.3 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › CRAL_TRIO_N 0.69 49.0 4.81e-01 74.1% 77.0%