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pre3_saliva_scaffold_6_prodigal-single.1__X__X__00224

Bact-Vir

pre3_saliva_scaffold_6_prodigal-single.1__X__X__00224

Identity

Kingdom:
phage

Quality

77.7 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 high residues 13-135
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.73 29.0 3.98e-01 79.7% 71.4%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.72 32.0 4.09e-01 95.9% 69.3%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.72 28.0 3.97e-01 78.9% 74.6%
5vh2D01 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.68 39.0 4.20e-01 81.3% 66.0%
5t4mB01 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.67 39.0 4.06e-01 80.5% 61.1%
6bx7A02 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.67 41.0 4.36e-01 81.3% 69.1%
6pgwA03 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.66 39.0 4.24e-01 80.5% 69.6%
5tfmA01 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.66 39.0 4.35e-01 80.5% 73.5%
6vg1A04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.65 37.0 4.03e-01 80.5% 65.4%
3q2wA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.65 38.0 4.12e-01 82.1% 67.6%
8egxA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.65 35.0 3.86e-01 78.0% 63.4%
3uc2A00 2.60.40.3340 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4426 0.64 38.0 3.84e-01 82.1% 57.3%
5szrA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.64 38.0 4.07e-01 79.7% 68.6%
1a7eA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.64 48.0 4.91e-01 93.5% 81.4%
3ubhA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.63 35.0 3.82e-01 81.3% 65.3%
5irbA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 37.0 3.94e-01 81.3% 66.3%
5wjmA01 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.62 38.0 4.03e-01 81.3% 69.8%
6x5vA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 35.0 3.84e-01 80.5% 69.8%
2a9uA01 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 36.0 3.60e-01 74.8% 57.1%
3og6B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 35.0 3.87e-01 82.1% 71.7%
5dzxA04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.58 36.0 3.87e-01 82.1% 72.1%
2okmA00 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 46.0 4.35e-01 100.0% 70.5%
2p61A00 1.20.120.490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hypothetical protein TM1646-like domain 0.57 42.0 4.36e-01 79.7% 80.7%
2qupA00 1.20.120.490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hypothetical protein TM1646-like domain 0.57 42.0 4.34e-01 77.2% 91.6%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.56 42.0 3.78e-01 77.2% 70.1%
3bp1A02 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.56 34.0 3.40e-01 75.6% 56.4%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.55 45.0 4.65e-01 89.4% 92.2%
5jtwB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 34.0 3.64e-01 82.1% 71.7%
3qvsA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 37.0 3.98e-01 76.4% 84.2%
3irpX02 2.60.40.1290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 42.0 4.00e-01 99.2% 68.9%
6f1uK02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.54 41.0 3.90e-01 80.5% 67.6%
6jpaE00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.54 42.0 3.79e-01 82.9% 70.4%
4kz1A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.54 41.0 4.05e-01 81.3% 98.5%
6vftD04 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.53 33.0 3.50e-01 81.3% 70.2%
1a66A00 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.53 40.0 3.62e-01 81.3% 68.5%
1nbwA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 28.0 2.83e-01 98.4% 45.5%
2iqiB00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.52 46.0 4.19e-01 100.0% 83.0%
2yv7A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 42.0 4.03e-01 84.6% 84.8%
7powA01 1.20.120.1760 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CDP-alcohol phosphotransferase transmembrane (TM) domain 0.52 39.0 3.29e-01 77.2% 60.6%
2wuqB00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.52 43.0 3.30e-01 89.4% 83.4%
1ek9A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.52 43.0 2.93e-01 88.6% 68.9%
4agsB04 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.51 43.0 4.26e-01 90.2% 97.0%
4bnqB00 3.90.950.10 Alpha Beta › Alpha-Beta Complex › Maf protein › 0.51 45.0 3.95e-01 100.0% 92.7%
6w08A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.51 42.0 3.08e-01 90.2% 91.6%
6ap4B02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.51 36.0 3.45e-01 72.4% 95.0%
3v3sA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 41.0 3.25e-01 89.4% 83.6%
3jrqA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.50 44.0 3.48e-01 98.4% 62.7%
1gr0A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.50 29.0 3.37e-01 80.5% 81.0%
4akrA02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.50 37.0 3.56e-01 87.8% 66.0%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3737747 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.80 41.0 2.97e-01 71.5% 20.7%
3530385 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.68 40.0 3.66e-01 83.7% 44.4%
3761425 11.1.1.849 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin, Cadherin_C_2 0.68 39.0 3.29e-01 82.9% 33.3%
3483130 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.67 43.0 4.31e-01 82.1% 62.3%
3888757 11.1.1.849 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin, Cadherin_C_2 0.66 40.0 3.45e-01 82.9% 38.9%
3575594 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.65 39.0 4.62e-01 82.1% 90.0%
3475857 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.65 45.0 4.56e-01 82.1% 70.4%
3884448 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.65 38.0 3.81e-01 82.9% 55.2%
3930868 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.65 35.0 3.75e-01 81.3% 60.0%
4308194 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.63 36.0 4.26e-01 100.0% 81.2%
3602292 504.1.1.0 ↗ a+b two layers › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB › Bacterial protein-export protein SecB 0.62 35.0 3.90e-01 100.0% 70.5%
3185303 109.4.1.1378 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF2428, TPR_Trm732_C 0.62 40.0 2.49e-01 80.5% 12.5%
3490438 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.61 42.0 4.13e-01 81.3% 65.2%
3213118 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 39.0 3.83e-01 80.5% 59.3%
3959610 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.60 34.0 3.31e-01 94.3% 48.9%
3471019 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.60 47.0 4.50e-01 82.1% 73.6%
3484990 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.57 41.0 4.10e-01 81.3% 71.5%
4973883 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 33.0 3.50e-01 81.3% 62.7%
4935668 601.33.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.56 43.0 4.23e-01 78.9% 88.5%
5063259 601.33.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.56 42.0 4.23e-01 78.0% 85.6%
3500606 868.1.1.3 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › Med20 0.56 47.0 4.14e-01 91.9% 100.0%
4522038 11.1.1.6 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › A2M 0.55 35.0 3.68e-01 81.3% 70.0%
4982275 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.84e-01 80.5% 67.4%
3770448 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.55 38.0 3.40e-01 97.6% 51.2%
4064564 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.55 49.0 4.14e-01 100.0% 94.3%
4998370 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.54 39.0 3.19e-01 76.4% 94.2%
5071225 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 43.0 4.43e-01 82.1% 93.9%
4102271 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.54 48.0 4.07e-01 100.0% 88.5%
5013081 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 3.86e-01 95.1% 64.4%
4110419 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.53 47.0 4.10e-01 100.0% 92.8%
3360262 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.53 40.0 3.48e-01 79.7% 56.8%
3534691 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.53 40.0 3.61e-01 82.1% 58.8%
1150086 2484.1.1.5 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Hexokinase_1 0.53 30.0 2.92e-01 100.0% 46.9%
4303181 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.53 47.0 4.00e-01 100.0% 88.8%
4270209 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.52 46.0 4.03e-01 100.0% 95.9%
3515197 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.52 40.0 3.59e-01 79.7% 59.4%
4997928 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 48.0 3.04e-01 99.2% 32.5%
4516223 109.4.1.198 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_12 0.52 35.0 3.21e-01 90.2% 50.3%
4107309 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.52 46.0 3.91e-01 100.0% 85.1%
3875809 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.52 39.0 3.58e-01 79.7% 60.0%
3484227 4051.1.1.0 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz 0.52 39.0 3.55e-01 82.9% 58.2%
3936465 11.1.1.3 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ig 0.52 33.0 3.24e-01 82.1% 57.8%
1944087 330.2.1.1 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › Ribosomal_S30AE 0.51 39.0 4.02e-01 98.4% 85.3%
4520610 5085.1.1.1 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.51 42.0 2.92e-01 88.6% 69.4%
4344452 223.3.1.3 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.51 45.0 3.66e-01 100.0% 89.8%
3270312 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.51 39.0 3.55e-01 82.9% 76.0%
3056279 4051.1.1.2 ↗ a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F-actin_cap_A 0.50 37.0 3.45e-01 82.1% 59.5%
4026241 2485.2.1.0 ↗ a+b three layers › Thioredoxin-like › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RNA 3'-terminal phosphate cyclase, RPTC, insert domain 0.50 41.0 4.29e-01 99.2% 98.2%
3701390 11.8.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Osmotin-like › Osmotin-like 0.50 44.0 3.58e-01 98.4% 56.3%
4961140 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.50 44.0 3.96e-01 100.0% 93.9%
4987689 7504.1.1.1 ↗ a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › Ham1p_like 0.50 44.0 3.96e-01 100.0% 93.3%