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LacPavin_0818_WC40_scaffold_407201_prodigal-single.1__X__X__00104

Bact-Vir

LacPavin_0818_WC40_scaffold_407201_prodigal-single.1__X__X__00104

Identity

Kingdom:
phage

Quality

67.1 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 408-487
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rr1A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.54 42.0 3.56e-01 96.2% 50.4%
5ygqA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 41.0 3.02e-01 85.0% 70.3%
1xp4A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.52 42.0 2.97e-01 91.3% 80.3%
6mgiA03 1.20.1440.90 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Phosphoenolpyruvate/pyruvate domain 0.50 39.0 3.37e-01 86.3% 70.8%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5056131 3352.1.1.0 alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain 0.61 50.0 3.19e-01 95.0% 59.6%
3818560 109.4.1.32 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G 0.57 39.0 2.99e-01 70.0% 37.9%
5003455 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.56 33.0 2.74e-01 72.5% 29.7%
4851507 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 38.0 3.06e-01 75.0% 47.4%
3722860 2004.1.1.463 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin, Kinesin_assoc, Microtub_bd 0.52 39.0 2.51e-01 83.7% 24.1%
3626589 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 42.0 3.26e-01 97.5% 40.6%
D2 medium residues 87-393
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1c3gA01 2.60.260.20 Mainly Beta › Sandwich › HSP40/DNAj peptide-binding domain › Urease metallochaperone UreE, N-terminal domain 0.52 14.0 2.85e-01 71.3% 89.7%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4969129 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.66 15.0 2.67e-01 71.3% 55.2%
3860209 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.55 14.0 2.45e-01 76.2% 61.0%
3633076 1.1.1.30 beta barrels › cradle loop barrel › RIFT-related › acid protease › PF30863 0.51 13.0 2.30e-01 73.3% 63.8%
D3 medium residues 502-602_1045-1105
PDB
Domain cluster: representative
D4 medium residues 1106-1216
PDB
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v31A01 2.40.30.180 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Ubiquitin-activating enzyme E1, FCCH domain 0.75 56.0 5.99e-01 82.9% 89.7%
1v0fB03 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.73 54.0 6.06e-01 78.4% 100.0%
1vw3C01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.71 55.0 5.20e-01 81.1% 73.3%
6tdyD01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.71 47.0 5.55e-01 70.3% 100.0%
2m5sA00 2.40.30.240 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.67 52.0 5.05e-01 82.0% 100.0%
1a8pA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.66 47.0 5.02e-01 73.9% 100.0%
5tr9A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.66 48.0 5.09e-01 75.7% 100.0%
3u28C00 2.40.10.230 Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain 0.65 46.0 5.01e-01 75.7% 89.1%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.65 47.0 4.83e-01 74.8% 100.0%
2qf4A01 2.40.10.340 Mainly Beta › Beta Barrel › Thrombin, subunit H › Rod shape-determining protein MreC, domain 1 0.61 41.0 4.71e-01 81.1% 97.5%
4aq1A01 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 38.0 4.14e-01 70.3% 76.6%
4eclA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.54 45.0 4.07e-01 89.2% 88.1%
3zpeA00 2.60.90.50 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.54 43.0 4.05e-01 88.3% 96.4%
1k85A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 36.0 3.96e-01 87.4% 88.6%
3wcyA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 35.0 3.86e-01 78.4% 86.0%
4lusB01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.53 43.0 3.95e-01 88.3% 86.6%
4odbA00 2.60.90.20 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › Virus attachment protein , globular domain 0.53 43.0 3.91e-01 91.9% 92.6%
2zuxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 34.0 3.70e-01 79.3% 80.7%
4nn5C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.89e-01 81.1% 81.8%
3r8qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 36.0 3.94e-01 88.3% 88.9%
2ekjA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 38.0 3.94e-01 88.3% 81.0%
3f7pD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 37.0 3.94e-01 88.3% 89.0%
2n1kA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 38.0 3.91e-01 95.5% 82.1%
5j11C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.81e-01 81.1% 81.6%
1y6kR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 38.0 3.99e-01 87.4% 86.3%
3tesA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.87e-01 84.7% 87.2%
2cuhA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 35.0 3.77e-01 85.6% 87.5%
1qr4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 35.0 3.80e-01 85.6% 89.7%
1a21A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.83e-01 83.8% 85.7%
4ei0A01 2.60.40.3550 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4466 0.51 39.0 3.61e-01 81.1% 63.8%
1fnfA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 35.0 3.85e-01 85.6% 91.0%
1t9hA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 30.0 3.49e-01 83.8% 87.7%
1egjA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 37.0 3.91e-01 88.3% 87.1%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3332862 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.76 56.0 6.02e-01 80.2% 89.5%
199114 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.75 56.0 5.66e-01 82.9% 77.7%
4026674 11.21.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domain in tailspike protein › Ig-like domain in tailspike protein 0.72 50.0 5.67e-01 79.3% 98.8%
4660673 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.71 50.0 5.60e-01 75.7% 95.3%
3512272 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 46.0 5.51e-01 75.7% 98.7%
3250056 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.70 51.0 4.94e-01 75.7% 91.2%
3247934 1.1.7.41 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › UPF1_1B_dom 0.70 51.0 5.42e-01 75.7% 100.0%
5078307 11.21.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domain in tailspike protein › Ig-like domain in tailspike protein 0.69 46.0 5.45e-01 72.1% 100.0%
5004300 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.69 51.0 5.23e-01 75.7% 85.7%
4518787 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.69 46.0 5.34e-01 74.8% 100.0%
4429352 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 48.0 5.29e-01 82.0% 90.0%
4939996 1.1.7.46 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SMUBP-2_HCS1_1B 0.68 52.0 5.34e-01 79.3% 100.0%
3266329 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.68 49.0 4.53e-01 73.9% 98.6%
3789503 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.68 50.0 5.16e-01 76.6% 98.1%
3417889 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.68 48.0 4.88e-01 73.0% 100.0%
3944437 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 47.0 5.40e-01 73.0% 100.0%
4964309 1.1.7.20 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Gar1 0.68 44.0 5.23e-01 73.0% 100.0%
4963784 1.1.7.7 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.67 49.0 5.19e-01 76.6% 97.0%
3273490 1.1.7.46 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SMUBP-2_HCS1_1B 0.67 52.0 5.07e-01 81.1% 99.2%
3369214 1.1.7.46 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SMUBP-2_HCS1_1B 0.67 52.0 5.28e-01 82.0% 100.0%
4074297 1.1.7.9 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › tRNA-synt_2c 0.67 49.0 4.85e-01 79.3% 73.9%
4950482 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.66 44.0 5.15e-01 72.1% 100.0%
3328574 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.66 45.0 4.37e-01 70.3% 100.0%
4173804 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.66 46.0 5.03e-01 72.1% 97.8%
3236163 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.65 49.0 5.01e-01 77.5% 100.0%
3291083 11.21.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domain in tailspike protein › Ig-like domain in tailspike protein 0.65 50.0 5.48e-01 88.3% 100.0%
4883586 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 46.0 5.16e-01 76.6% 95.3%
4854964 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.64 46.0 5.10e-01 76.6% 96.5%
3987460 1.1.7.89 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.64 47.0 4.74e-01 77.5% 99.1%
3172185 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.63 47.0 4.80e-01 79.3% 89.1%
3265132 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 38.0 4.47e-01 70.3% 89.3%
4205165 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 45.0 5.04e-01 76.6% 100.0%
3219381 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 40.0 4.37e-01 79.3% 82.2%
3968780 1.1.7.89 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.60 49.0 4.31e-01 86.5% 81.2%
4989873 1.1.7.28 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.60 45.0 4.44e-01 78.4% 100.0%
4943168 1.1.7.144 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › AAA_11 0.59 43.0 4.57e-01 78.4% 87.4%
3973898 1.1.7.89 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.58 47.0 4.38e-01 89.2% 86.9%
4407090 1.1.7.89 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.58 47.0 4.38e-01 89.2% 81.4%
3248952 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 38.0 4.28e-01 80.2% 87.1%
4311943 1.1.7.89 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF26002 0.56 47.0 4.64e-01 91.9% 91.7%
3387518 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 37.0 4.10e-01 85.6% 90.6%
3761541 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 44.0 4.55e-01 95.5% 98.0%
3910809 11.10.1.10 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › PF28124 0.54 40.0 3.62e-01 78.4% 84.4%
4484519 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 38.0 3.99e-01 83.8% 85.3%
3927339 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 40.0 3.87e-01 80.2% 82.4%
5033362 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 34.0 3.78e-01 78.4% 85.9%
3469125 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.53 38.0 3.64e-01 75.7% 74.6%
3513760 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.52 43.0 4.25e-01 98.2% 86.7%
3572239 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 38.0 3.64e-01 90.1% 64.4%
3913354 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 36.0 3.93e-01 88.3% 91.1%
3263949 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 36.0 3.83e-01 80.2% 84.2%
5014046 11.1.1.949 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF28476 0.51 38.0 3.94e-01 80.2% 93.3%