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term2_saliva_scaffold_1_prodigal-single.1__X__X__00198

Bact-Vir

term2_saliva_scaffold_1_prodigal-single.1__X__X__00198

Identity

Kingdom:
phage

Quality

70.8 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 104-263
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.67 41.0 4.97e-01 75.0% 94.2%
2joqA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.65 29.0 4.12e-01 71.9% 89.3%
1bdfA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.63 39.0 4.71e-01 75.6% 93.4%
4aybL00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.62 34.0 4.38e-01 81.2% 93.4%
2rrnA01 3.30.70.2040 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 29.0 3.85e-01 70.6% 83.1%
3uebF00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.61 38.0 4.72e-01 76.9% 99.0%
4qjvB00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.61 35.0 4.41e-01 80.6% 95.7%
2op5B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 34.0 4.16e-01 74.4% 89.0%
1uw4A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 30.0 3.79e-01 80.0% 82.4%
6ruiK00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.59 34.0 4.18e-01 80.6% 89.3%
2od6C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 34.0 4.03e-01 80.0% 84.1%
2khdA00 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 32.0 3.73e-01 79.4% 75.9%
6gmhK00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.58 34.0 3.97e-01 75.0% 80.9%
3w9iA06 3.30.70.1430 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.57 33.0 4.05e-01 70.6% 88.2%
2x1wL02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 34.0 4.09e-01 76.9% 88.6%
3m05B01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 30.0 3.78e-01 82.5% 85.9%
5xogK00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.57 34.0 3.88e-01 80.6% 80.5%
6hhnA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 31.0 3.87e-01 82.5% 89.1%
1iujA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 31.0 3.78e-01 79.4% 82.4%
2pgcC01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 31.0 3.83e-01 71.9% 85.6%
2pgcA02 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 30.0 3.62e-01 71.9% 76.4%
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 32.0 3.91e-01 79.4% 88.1%
2jdjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 30.0 3.63e-01 71.2% 80.8%
1dt4A00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.54 26.0 3.69e-01 73.1% 98.6%
4i6yA02 3.30.70.420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hydroxymethylglutaryl-CoA reductase, class I/II, NAD/NADP-binding domain 0.54 33.0 3.83e-01 73.1% 85.5%
1rjjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 31.0 3.55e-01 73.8% 76.6%
4h4kA01 3.30.70.2940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 27.0 3.44e-01 71.9% 83.1%
2anrA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.52 28.0 3.56e-01 74.4% 96.2%
3o3uN03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 32.0 3.79e-01 85.0% 88.3%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.52 30.0 3.74e-01 90.6% 90.2%
2ogkD00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.52 34.0 3.58e-01 70.0% 73.2%
1k8kD01 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 37.0 3.82e-01 81.9% 78.8%
4za1C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 26.0 3.22e-01 79.4% 80.4%
2r4fA02 3.90.770.10 Alpha Beta › Alpha-Beta Complex › 3-hydroxy-3-methylglutaryl-coenzyme A Reductase; Chain A, domain 2 › 3-hydroxy-3-methylglutaryl-coenzyme A Reductase; Chain A, domain 2 0.51 43.0 3.95e-01 90.6% 99.5%
1xuvA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.50 38.0 3.83e-01 78.8% 98.8%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4272563 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.70 41.0 5.10e-01 75.0% 93.0%
3594244 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.67 36.0 4.48e-01 71.9% 83.7%
4161001 305.1.1.0 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.66 39.0 5.01e-01 73.1% 100.0%
3608140 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.65 37.0 4.04e-01 73.8% 65.7%
4403450 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.65 45.0 5.11e-01 88.7% 94.2%
4541115 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.65 44.0 4.94e-01 88.1% 88.8%
4427322 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.64 41.0 4.66e-01 81.9% 85.0%
4187121 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.64 45.0 5.11e-01 89.4% 95.8%
4105404 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.63 40.0 4.62e-01 81.9% 87.0%
2777205 304.159.1.1 ↗ a+b two layers › Alpha-beta plaits › Alpha-beta plait domain in NisB › Alpha-beta plait domain in NisB › Lant_dehydr_C 0.63 32.0 4.10e-01 80.6% 82.8%
4169524 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.63 42.0 4.85e-01 82.5% 93.0%
4941817 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.62 38.0 4.54e-01 82.5% 88.1%
4057397 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.62 42.0 4.86e-01 81.9% 94.8%
4607326 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.62 39.0 4.73e-01 80.6% 96.2%
3827396 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 35.0 4.22e-01 73.8% 81.8%
3554956 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.62 31.0 3.71e-01 71.9% 70.5%
3932886 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 33.0 4.22e-01 73.8% 88.4%
3822456 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 0.61 35.0 4.18e-01 73.8% 81.8%
2846995 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.61 32.0 4.15e-01 73.1% 88.2%
3807249 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.61 35.0 4.25e-01 73.1% 86.7%
5029644 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.60 33.0 3.98e-01 73.1% 80.0%
4022825 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.60 33.0 3.96e-01 73.8% 79.0%
5005033 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.60 30.0 4.07e-01 81.9% 95.0%
4397160 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.59 42.0 4.71e-01 85.6% 92.8%
5039535 3501.1.1.1 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.59 32.0 4.20e-01 76.9% 98.8%
3479702 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.58 33.0 4.03e-01 87.5% 84.8%
5026235 304.165.1.5 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › HVO_A0563_N 0.58 43.0 4.54e-01 78.1% 85.5%
184732 3313.1.1.1 ↗ a+b two layers › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › DUF406 0.58 32.0 3.73e-01 79.4% 75.9%
4930719 309.1.2.2 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › ThrRS/AlaRS editing domain › tRNA_bind_4 0.58 34.0 3.38e-01 80.6% 53.9%
4998201 3501.1.1.0 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.57 31.0 4.02e-01 81.9% 96.5%
4230728 304.4.1.70 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › PF29828 0.57 33.0 3.58e-01 73.8% 66.2%
3886540 304.151.1.5 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › Ferredoxin-like domain of receptor-type protein tyrosine phosphatase › JAG1 0.57 35.0 3.72e-01 81.2% 68.6%
3706456 304.55.2.8 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › FAZ1_cons 0.57 32.0 4.07e-01 73.1% 95.6%
4105022 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.56 30.0 3.74e-01 91.3% 87.8%
3858557 304.159.1.4 ↗ a+b two layers › Alpha-beta plaits › Alpha-beta plait domain in NisB › Alpha-beta plait domain in NisB › JAG1 0.56 36.0 4.14e-01 75.0% 88.7%
3540722 304.44.1.5 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › JAG1 0.55 36.0 4.15e-01 76.2% 90.4%
5053029 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.54 29.0 3.71e-01 73.8% 88.4%
4405647 304.61.1.2 ↗ a+b two layers › Alpha-beta plaits › Aldoxime dehydratase › Aldoxime dehydratase › Monooxy_af470-like 0.53 32.0 3.03e-01 83.1% 46.5%
3505207 2004.1.3.2 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR,EKR 0.52 41.0 3.44e-01 83.1% 71.1%
4959045 304.8.1.81 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › REP_ORF2-G2P 0.52 35.0 3.65e-01 73.1% 73.3%
3437624 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 33.0 3.66e-01 91.9% 84.2%
3658915 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.51 30.0 3.66e-01 78.8% 95.8%
3931669 304.4.1.54 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Amnionless 0.51 33.0 3.41e-01 81.2% 67.3%
5025841 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.50 25.0 3.07e-01 73.8% 76.7%
D2 medium residues 1-55_331-352
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lcjA00 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.76 65.0 4.88e-01 93.5% 99.5%
1dq3A01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.75 64.0 4.87e-01 93.5% 99.4%
2lwyA00 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.65 56.0 4.61e-01 94.8% 98.6%
3cjsA00 3.30.70.1170 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sun protein; domain 3 0.59 38.0 4.34e-01 96.1% 87.9%
6zgqA01 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.57 50.0 4.06e-01 98.7% 58.5%
2zbiA02 3.30.70.2120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 48.0 4.32e-01 98.7% 89.9%
1e0yA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.55 43.0 3.83e-01 84.4% 92.8%
3qzqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 35.0 3.75e-01 98.7% 73.9%
4k59A00 2.60.40.4380 Mainly Beta › Sandwich › Immunoglobulin-like › Translational regulator CsrA 0.52 41.0 4.38e-01 93.5% 98.5%
1xppD00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.51 37.0 3.47e-01 92.2% 59.4%
8ezmH02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 43.0 3.86e-01 98.7% 89.3%
4gn1C02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 34.0 2.81e-01 71.4% 100.0%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4170121 69.1.1.11 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › PT-HINT, Intein_splicing 0.75 65.0 4.99e-01 94.8% 99.4%
5024341 69.1.1.4 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Intein_splicing 0.73 63.0 4.76e-01 96.1% 97.8%
5030213 69.1.1.4 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Intein_splicing 0.68 59.0 4.69e-01 94.8% 94.0%
5034648 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 47.0 4.38e-01 98.7% 94.0%
3922655 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.54 37.0 3.00e-01 70.1% 66.5%
D3 medium residues 56-95_267-330
PDB