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term1_saliva_scaffold_3_curated_closed_complete_prodigal-single.1__X__X__00354

Bact-Vir

term1_saliva_scaffold_3_curated_closed_complete_prodigal-single.1__X__X__00354

Identity

Kingdom:
phage

Quality

90.4 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 9-91
PDB
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7ri3D01 3.90.175.10 Alpha Beta › Alpha-Beta Complex › Diphtheria Toxin; domain 1 › Diphtheria Toxin, domain 1 0.68 62.0 4.65e-01 100.0% 82.8%
1wfxA02 3.20.170.30 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › 0.67 60.0 5.85e-01 98.8% 96.7%
2x9aA00 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.60 40.0 4.57e-01 77.1% 93.4%
1tolA01 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.55 41.0 4.16e-01 90.4% 79.3%
2eabB01 2.70.98.50 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › putative glycoside hydrolase family protein from bacillus halodurans 0.53 43.0 3.23e-01 94.0% 63.3%
4ufcA01 2.70.98.50 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › putative glycoside hydrolase family protein from bacillus halodurans 0.53 43.0 3.00e-01 94.0% 50.0%
2j2jA00 2.60.90.10 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Adenovirus pIV-related, attachment domain 0.52 40.0 3.28e-01 90.4% 100.0%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995698 237.1.1.0 a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation 0.82 76.0 7.09e-01 100.0% 100.0%
150402 392.1.1.1 beta meanders › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › Phage_Coat_A 0.59 41.0 4.55e-01 77.1% 89.6%
5006473 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.56 38.0 3.04e-01 71.1% 86.3%
3591086 301.8.1.0 a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase 0.50 36.0 2.93e-01 75.9% 100.0%
D2 medium residues 92-227
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1k8fA00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.83 63.0 6.01e-01 78.7% 74.5%
1k4zA00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.83 63.0 6.00e-01 78.7% 73.9%
2b0rB00 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.81 61.0 5.80e-01 78.7% 74.1%
7chuA01 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.78 66.0 4.72e-01 89.0% 50.6%
3gq8A01 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.77 65.0 4.38e-01 88.2% 42.2%
3riqA00 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.77 64.0 4.19e-01 88.2% 43.6%
1qjvA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.74 62.0 4.53e-01 88.2% 61.4%
4nk6A00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.73 68.0 4.71e-01 100.0% 66.5%
1k5cA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.73 61.0 4.55e-01 89.0% 54.1%
3bh7B01 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.73 60.0 5.27e-01 86.8% 69.9%
4w8qA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.73 60.0 4.97e-01 87.5% 81.2%
3eqnA02 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.73 61.0 4.41e-01 89.0% 63.8%
3b4nA02 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.73 60.0 5.04e-01 88.2% 79.6%
4hwvB00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.72 64.0 4.31e-01 94.9% 73.1%
1ee6A00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.72 61.0 5.36e-01 89.7% 74.1%
2yuhA01 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.72 60.0 5.53e-01 88.2% 80.2%
3ak5D02 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.72 60.0 3.77e-01 89.0% 27.4%
1af0A01 2.150.10.10 Mainly Beta › 2 Solenoid › Alkaline Protease, subunit P, domain 1 › Serralysin-like metalloprotease, C-terminal 0.72 67.0 5.47e-01 100.0% 71.6%
3n6zA01 2.160.20.110 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.72 61.0 4.76e-01 89.0% 70.6%
1gq8A00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.69 57.0 4.37e-01 89.7% 52.8%
8tmsA01 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.67 56.0 4.47e-01 90.4% 78.2%
5jlvC00 2.160.20.80 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › E3 ubiquitin-protein ligase SopA 0.63 43.0 4.98e-01 75.0% 97.9%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3429908 208.2.1.0 beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Adhesin YadA, collagen-binding domain › Adhesin YadA, collagen-binding domain 0.89 57.0 6.24e-01 86.8% 76.5%
4915825 207.6.1.2 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind,HCBP_related 0.86 67.0 6.14e-01 79.4% 81.5%
3844607 207.6.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C 0.86 69.0 4.94e-01 83.1% 53.9%
4028692 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.85 72.0 4.87e-01 88.2% 41.8%
4995410 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.85 72.0 5.25e-01 88.2% 54.2%
3744798 208.1.1.43 beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › DUF1720 0.84 61.0 5.86e-01 87.5% 66.7%
3758283 207.6.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C 0.84 71.0 6.40e-01 87.5% 80.0%
4333063 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.84 71.0 5.23e-01 89.0% 80.9%
3254891 207.6.1.8 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › Nucleoporin_FG 0.83 65.0 6.58e-01 80.9% 84.4%
3305986 208.7.1.0 beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Grass antifreeze protein › Grass antifreeze protein 0.83 53.0 5.80e-01 86.8% 76.5%
3546698 207.6.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C 0.83 70.0 6.56e-01 87.5% 83.7%
4634184 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.82 70.0 5.26e-01 88.2% 63.1%
4029787 207.9.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pentapeptide repeats › Pentapeptide repeats 0.82 63.0 5.22e-01 84.6% 47.4%
5058805 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.82 69.0 4.68e-01 89.0% 62.4%
4520609 207.6.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind 0.81 69.0 6.50e-01 88.2% 94.4%
5035218 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.80 64.0 5.26e-01 82.4% 74.7%
3904845 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.80 63.0 4.49e-01 80.9% 31.7%
5022823 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.80 69.0 5.16e-01 90.4% 75.5%
5031536 207.2.1.13 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › NosD 0.79 65.0 4.59e-01 86.0% 39.7%
4969480 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.78 66.0 5.10e-01 89.0% 53.0%
4003464 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.78 65.0 4.71e-01 87.5% 46.6%
3568048 207.6.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C 0.78 60.0 4.17e-01 86.8% 25.6%
3778106 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.78 61.0 4.42e-01 82.4% 53.1%
4379607 207.6.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind 0.77 61.0 5.76e-01 82.4% 86.9%
5028334 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.77 70.0 4.97e-01 97.8% 70.8%
5058080 207.8.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Stabilizer of iron transporter sufD › Stabilizer of iron transporter sufD › SUFBD 0.76 70.0 4.91e-01 97.8% 64.4%
3686362 207.2.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Glyco_hydro_28 0.76 63.0 5.06e-01 88.2% 87.1%
3903674 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.73 51.0 4.27e-01 88.2% 42.6%
4989937 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.73 67.0 5.70e-01 97.8% 94.3%
4030372 207.9.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pentapeptide repeats › Pentapeptide repeats 0.73 60.0 6.10e-01 88.2% 91.1%
1714446 207.2.1.66 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › WcaM 0.72 60.0 4.07e-01 88.2% 38.3%
3517885 207.14.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Bactofilin A › Bactofilin A 0.68 54.0 4.87e-01 82.4% 65.6%
4884477 207.2.1.4 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Pectinesterase 0.66 56.0 4.94e-01 92.6% 96.5%
2410150 207.10.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Arctic yeast antifreeze protein › Arctic yeast antifreeze protein › Ice_binding 0.64 57.0 4.67e-01 97.1% 93.9%
3607745 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 44.0 3.41e-01 86.0% 80.3%
D3 medium residues 228-339
PDB
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1rmgA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.56 50.0 3.41e-01 100.0% 39.1%
3mteA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 40.0 3.28e-01 79.5% 92.7%
3busB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 37.0 2.92e-01 72.3% 87.6%
2deoB00 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.53 45.0 3.79e-01 95.5% 70.0%
3i9fB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 39.0 3.45e-01 78.6% 88.2%
6gszA05 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.51 34.0 3.91e-01 83.9% 93.9%
4jwvA01 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.51 42.0 3.50e-01 89.3% 81.1%
5fcdA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 36.0 2.91e-01 75.0% 89.9%
2vhhA00 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.51 43.0 3.07e-01 92.9% 43.8%
5khaB01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.50 39.0 3.09e-01 85.7% 58.5%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.50 36.0 3.31e-01 74.1% 88.4%
3l3sA01 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.50 44.0 3.73e-01 99.1% 85.6%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4663567 207.6.1.12 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › Ice_nucleation 0.89 74.0 4.51e-01 94.6% 16.2%
3599238 207.4.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › C-CAP/cofactor C-like › C-CAP/cofactor C-like 0.72 62.0 5.35e-01 100.0% 61.2%
4965696 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.70 63.0 4.68e-01 100.0% 68.3%
4143020 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.70 63.0 4.75e-01 100.0% 76.7%
4022438 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.69 55.0 4.02e-01 84.8% 86.6%
4059116 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.67 58.0 4.33e-01 95.5% 74.6%
4219565 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.66 57.0 4.33e-01 95.5% 72.6%
3803729 207.14.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Bactofilin A › Bactofilin A 0.64 32.0 3.91e-01 85.7% 76.9%
4074921 207.6.1.2 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind,HCBP_related 0.64 60.0 4.74e-01 100.0% 59.0%
1380293 207.6.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind 0.60 56.0 5.40e-01 100.0% 98.4%
1380294 207.6.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › HemolysinCabind 0.58 50.0 4.86e-01 99.1% 81.6%
3266611 207.2.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.57 51.0 4.07e-01 100.0% 51.5%
4824961 1033.1.1.1 beta duplicates or obligate multimers › Toxin A (TcdA) delivery domain › Toxin A (TcdA) delivery domain › Toxin A (TcdA) delivery domain › TcdA_TcdB_pore 0.56 46.0 3.97e-01 88.4% 91.6%
3870521 207.14.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Bactofilin A › Bactofilin A 0.56 36.0 4.40e-01 95.5% 100.0%
4884477 207.2.1.4 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Pectinesterase 0.56 49.0 4.13e-01 100.0% 79.9%
3987739 207.4.1.6 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › C-CAP/cofactor C-like › C-CAP/cofactor C-like › CFSR 0.55 50.0 3.90e-01 100.0% 74.6%
4856486 207.9.1.5 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pentapeptide repeats › Pentapeptide repeats › LD_SV2 0.55 43.0 4.40e-01 89.3% 86.5%
3391267 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 40.0 2.94e-01 86.6% 81.2%