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pre1_saliva_scaffold_4_prodigal-single.1__X__X__00064

Bact-Vir

pre1_saliva_scaffold_4_prodigal-single.1__X__X__00064

Identity

Kingdom:
phage

Quality

81.3 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 3-54
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4heoA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.74 60.0 5.93e-01 92.3% 89.1%
4kjmA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.72 62.0 6.14e-01 96.2% 92.7%
3bbzA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.72 58.0 5.94e-01 96.2% 97.9%
1oksA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.72 56.0 5.63e-01 92.3% 88.7%
1uqwA03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.70 56.0 3.66e-01 88.5% 68.9%
1r4gA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.70 55.0 5.51e-01 94.2% 90.6%
3a8pA02 6.10.140.680 Special › Helix non-globular › Helix Hairpins › 0.70 47.0 3.57e-01 73.1% 31.6%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.69 46.0 4.82e-01 73.1% 75.0%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 48.0 3.14e-01 84.6% 16.5%
2db0B00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.69 50.0 3.25e-01 78.8% 20.4%
3s0aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.68 58.0 4.55e-01 100.0% 81.5%
3v42A02 1.10.10.1730 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Folliculin 0.66 45.0 3.98e-01 73.1% 77.2%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.65 49.0 3.97e-01 84.6% 63.9%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 46.0 4.08e-01 73.1% 91.8%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.65 44.0 3.86e-01 73.1% 46.8%
7kz9A02 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.63 52.0 3.50e-01 94.2% 70.2%
1a6jB00 3.40.930.10 Alpha Beta › 3-Layer(aba) Sandwich › Mannitol-specific EII; Chain A › Mannitol-specific EII; Chain A 0.61 52.0 3.71e-01 96.2% 89.2%
2p0tA01 1.10.60.30 Mainly Alpha › Orthogonal Bundle › Diphtheria Toxin Repressor; domain 2 › PSPTO4464-like domains 0.61 45.0 4.02e-01 80.8% 68.4%
4pfyA03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.61 47.0 3.20e-01 94.2% 73.0%
3r72A00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.60 50.0 3.95e-01 100.0% 78.7%
2elcA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.60 41.0 3.82e-01 71.2% 55.2%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.60 40.0 3.61e-01 71.2% 88.9%
1zvwA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.60 42.0 3.92e-01 73.1% 60.6%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.60 41.0 3.43e-01 73.1% 65.9%
1uiuA02 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.60 49.0 3.32e-01 100.0% 72.8%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.59 51.0 4.37e-01 100.0% 90.7%
4muoA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.58 40.0 3.64e-01 73.1% 51.4%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.58 51.0 3.77e-01 96.2% 60.3%
4gtnA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.58 40.0 3.60e-01 71.2% 51.4%
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 0.58 45.0 4.09e-01 88.5% 63.5%
2zxrA02 3.90.1640.30 Alpha Beta › Alpha-Beta Complex › inorganic pyrophosphatase (n-terminal core) › 0.57 45.0 3.12e-01 96.2% 30.6%
3dfgA01 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 0.56 38.0 3.93e-01 71.2% 75.0%
2r6fA04 1.10.8.280 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › ABC transporter ATPase domain-like 0.56 41.0 3.25e-01 82.7% 96.6%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.55 46.0 4.18e-01 98.1% 90.7%
2ffjA02 1.10.285.20 Mainly Alpha › Orthogonal Bundle › Glutamate Dehydrogenase; Chain A, domain 3 › Uncharacterised protein PF01937, DUF89, domain 2 0.54 46.0 4.32e-01 100.0% 81.5%
1or7B01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.52 42.0 3.65e-01 100.0% 88.3%
2l09A01 1.10.8.550 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B 0.52 38.0 3.85e-01 90.4% 92.3%
2g80A02 1.10.720.60 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.51 41.0 3.66e-01 94.2% 94.9%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3730117 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.90 78.0 7.95e-01 96.2% 100.0%
3929358 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.87 78.0 6.47e-01 100.0% 61.1%
4093115 3877.1.1.1 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.84 57.0 3.62e-01 71.2% 16.2%
3629059 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.82 72.0 6.11e-01 98.1% 61.2%
3932132 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.82 71.0 5.94e-01 98.1% 57.8%
4001307 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.80 69.0 6.05e-01 98.1% 65.0%
3237733 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.80 70.0 6.06e-01 98.1% 65.0%
4964132 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.80 55.0 4.27e-01 71.2% 35.2%
3999994 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.79 69.0 6.14e-01 100.0% 70.7%
3380681 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.79 68.0 5.65e-01 92.3% 84.7%
4034224 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.79 62.0 5.44e-01 84.6% 88.0%
3236318 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.78 68.0 5.81e-01 100.0% 62.4%
4517001 632.3.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain 0.78 63.0 6.42e-01 90.4% 96.0%
3938072 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.77 66.0 5.81e-01 100.0% 65.0%
3603687 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.76 61.0 5.85e-01 96.2% 76.6%
4031266 632.2.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › GA 0.76 63.0 6.25e-01 90.4% 87.0%
1155488 632.2.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › GA 0.76 62.0 5.89e-01 90.4% 77.4%
4494528 632.2.1.40 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF515 0.75 61.0 6.07e-01 90.4% 89.1%
3212799 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 0.75 59.0 5.13e-01 90.4% 83.5%
5069402 632.23.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.75 63.0 5.85e-01 100.0% 74.3%
4968057 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.75 63.0 5.72e-01 100.0% 70.7%
4992050 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.75 55.0 4.29e-01 100.0% 36.5%
4597634 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.73 59.0 5.12e-01 88.5% 85.0%
3209515 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.73 62.0 5.54e-01 96.2% 66.7%
3279424 632.2.1.34 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › OmdA 0.73 58.0 5.77e-01 88.5% 96.2%
3277752 2003.1.3.23 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › NAD_binding_9 0.73 57.0 3.21e-01 86.5% 7.6%
3169432 207.1.1.28 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_9 0.72 51.0 3.33e-01 75.0% 18.1%
3597 632.3.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain › Paramyx_P_V_C 0.72 56.0 5.63e-01 92.3% 88.7%
3617518 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.72 61.0 5.61e-01 100.0% 90.0%
3285577 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.71 56.0 3.91e-01 86.5% 28.5%
3257606 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.71 62.0 5.94e-01 98.1% 90.0%
3598 632.3.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain › Paramyxo_P 0.70 55.0 5.51e-01 94.2% 90.6%
3961399 632.3.1.6 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain › OmdA 0.70 55.0 5.46e-01 88.5% 94.5%
1822527 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.68 47.0 3.37e-01 73.1% 30.9%
3178569 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.66 57.0 3.95e-01 98.1% 31.8%
3732279 103.12.1.0 ↗ alpha arrays › RuvA-C › ANTAR domain › ANTAR domain 0.66 55.0 5.33e-01 98.1% 86.7%
3226083 170.1.1.0 ↗ alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C 0.66 54.0 4.48e-01 100.0% 51.4%
4029953 1008.1.1.0 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain 0.65 45.0 3.90e-01 71.2% 90.6%
3882597 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.64 49.0 4.07e-01 80.8% 76.7%
5035980 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 44.0 4.04e-01 73.1% 57.1%
3510680 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.63 44.0 4.06e-01 73.1% 97.1%
3534690 4030.1.1.2 ↗ alpha bundles › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › F-actin_cap_A 0.62 40.0 3.98e-01 75.0% 61.8%
4232831 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.62 41.0 3.91e-01 71.2% 58.5%
4483014 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.61 42.0 4.08e-01 71.2% 63.3%
4433680 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.59 41.0 3.70e-01 71.2% 52.9%
2983780 184.1.1.0 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N 0.59 40.0 3.61e-01 73.1% 50.0%
4394553 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.59 40.0 3.60e-01 71.2% 50.7%
5038858 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.56 38.0 3.63e-01 71.2% 58.5%
4609007 101.1.17.0 ↗ alpha arrays › HTH › HTH › FF domain 0.56 33.0 3.42e-01 94.2% 60.0%
3491886 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.54 38.0 3.35e-01 73.1% 64.0%
3170882 603.1.1.210 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Tmemb_170 0.54 44.0 3.52e-01 100.0% 80.0%
4048253 184.1.1.1 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N 0.53 46.0 4.04e-01 100.0% 68.8%
5052463 3273.1.1.0 ↗ alpha arrays › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins 0.53 43.0 3.87e-01 100.0% 91.3%