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OK040790.1__UDL15889.1__SEA_PUMPERNICKEL_98__00098

Bact-Vir

OK040790.1__UDL15889.1__SEA_PUMPERNICKEL_98__00098

Identity

Accession:
OK040790 ↗
Kingdom:
phage

Quality

84.5 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 medium residues 65-152
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2eifA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.74 49.0 5.79e-01 70.5% 100.0%
2wfwB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.69 49.0 5.49e-01 86.4% 97.0%
5l37C00 2.40.50.220 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › EutN/Ccml 0.66 49.0 4.98e-01 77.3% 97.7%
1ybyA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 46.0 5.25e-01 73.9% 100.0%
3a5zD02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 45.0 5.17e-01 71.6% 98.4%
1u0lA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.65 46.0 5.23e-01 83.0% 100.0%
1x6oA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 51.0 5.36e-01 87.5% 100.0%
3qr8A01 2.40.50.230 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Gp5 N-terminal domain 0.62 50.0 5.17e-01 89.8% 91.7%
2k5nA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 45.0 4.86e-01 84.1% 91.9%
2ytyA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 47.0 4.79e-01 89.8% 84.1%
2id0A02 2.40.50.640 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.61 48.0 5.15e-01 87.5% 100.0%
1wfqA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 46.0 5.00e-01 83.0% 97.3%
4hikA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 46.0 4.03e-01 83.0% 92.8%
1pxfA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 45.0 4.22e-01 81.8% 86.5%
3aqqA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 46.0 4.42e-01 88.6% 73.7%
2eqsA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 43.0 4.31e-01 77.3% 91.0%
4gnxB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 46.0 4.14e-01 84.1% 86.9%
2pi2D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 45.0 4.06e-01 83.0% 84.6%
3a54A01 2.40.50.340 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 43.0 4.32e-01 81.8% 87.8%
1go3E01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 44.0 4.38e-01 84.1% 96.8%
1srqC02 3.40.50.11210 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Rap/Ran-GAP 0.56 36.0 2.88e-01 94.3% 30.4%
4joiA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 42.0 3.69e-01 84.1% 83.0%
3rn5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 41.0 4.12e-01 89.8% 100.0%
1smxA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 40.0 4.10e-01 86.4% 100.0%
1h8uB00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.51 38.0 3.52e-01 80.7% 93.1%
3hkzG00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 36.0 3.34e-01 73.9% 98.2%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4937684 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.75 48.0 5.70e-01 70.5% 96.7%
4352991 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.74 49.0 5.83e-01 85.2% 100.0%
4399115 2.1.1.13 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › eIF-5a 0.71 49.0 5.59e-01 71.6% 100.0%
4932460 2.1.1.13 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › eIF-5a 0.70 49.0 5.62e-01 72.7% 100.0%
4945673 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 48.0 5.49e-01 71.6% 98.4%
3232046 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 53.0 4.58e-01 87.5% 54.6%
4599318 2.1.1.299 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S12 0.68 48.0 5.01e-01 72.7% 95.0%
4947996 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.68 43.0 5.05e-01 70.5% 100.0%
4167626 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.67 47.0 5.34e-01 85.2% 100.0%
3606816 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.67 49.0 4.55e-01 76.1% 72.7%
3838464 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.67 47.0 5.37e-01 85.2% 100.0%
4937667 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.67 46.0 4.32e-01 72.7% 59.0%
3973473 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 45.0 4.46e-01 71.6% 100.0%
3268408 2.1.1.106 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PRS7_OB 0.65 48.0 4.17e-01 88.6% 50.4%
168736 2.1.1.3 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › CSD 0.65 44.0 4.98e-01 70.5% 100.0%
3165931 2.7.1.3 beta barrels › OB-fold › Tail-associated lysozyme gp5-N › Tail-associated lysozyme gp5-N › Phage_Mu_Gp45 0.65 52.0 5.36e-01 92.0% 89.4%
5002683 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.65 45.0 4.42e-01 71.6% 87.4%
4678731 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.65 46.0 5.13e-01 85.2% 100.0%
4429356 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.65 46.0 5.20e-01 73.9% 100.0%
4246562 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 51.0 5.04e-01 85.2% 96.8%
3596264 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 48.0 4.47e-01 79.5% 86.4%
4050524 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.64 45.0 5.12e-01 85.2% 100.0%
4978946 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 42.0 4.79e-01 77.3% 98.3%
4039724 2.1.1.10 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.64 45.0 5.06e-01 86.4% 100.0%
3226147 2.1.1.44 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Dna2 0.64 47.0 4.80e-01 78.4% 91.8%
3934825 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 50.0 4.63e-01 87.5% 94.8%
5024077 2.1.1.363 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF2101 0.62 44.0 4.36e-01 75.0% 81.1%
4983707 2.1.1.17 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_aCoA_assoc 0.62 49.0 4.41e-01 85.2% 68.3%
4339468 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 49.0 4.89e-01 85.2% 95.6%
3310146 206.1.3.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.61 47.0 3.13e-01 81.8% 73.7%
4936449 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 41.0 4.53e-01 70.5% 97.1%
5017464 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 47.0 4.52e-01 83.0% 92.0%
4966133 2.1.1.377 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF25948 0.59 47.0 3.69e-01 87.5% 71.0%
5027798 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.59 42.0 4.34e-01 75.0% 100.0%
3899842 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 41.0 4.24e-01 73.9% 88.2%
4944052 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 40.0 3.97e-01 71.6% 82.1%
3474422 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.59 44.0 3.85e-01 81.8% 78.6%
3212469 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 46.0 4.09e-01 88.6% 95.4%
3239308 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 39.0 4.41e-01 72.7% 98.4%
4027347 2.1.1.7 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › S1 0.55 44.0 4.02e-01 86.4% 76.5%
4950307 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 43.0 4.55e-01 86.4% 95.0%
4946033 2.1.1.374 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF2110_C 0.53 43.0 4.10e-01 90.9% 94.3%
5081144 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.52 41.0 4.23e-01 88.6% 100.0%
4994673 2.4.1.7 beta barrels › OB-fold › MOP-like › MOP-like › OB_MalK 0.51 40.0 3.57e-01 87.5% 97.8%
D2 medium residues 153-178_365-488
PDB
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2bseA00 2.60.40.1830 Mainly Beta › Sandwich › Immunoglobulin-like › Phage tail base-plate Siphoviridae RBP, head domain 0.74 52.0 6.04e-01 84.7% 99.1%
2fsdA00 2.60.40.2460 Mainly Beta › Sandwich › Immunoglobulin-like › Phage bIL170 RBP, head domain 0.73 52.0 6.02e-01 77.3% 99.1%
4nzjA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.58 35.0 4.29e-01 80.7% 100.0%
2e26A03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 35.0 3.29e-01 70.7% 76.4%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3293992 12.1.1.35 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Melibiase_C 0.59 39.0 4.61e-01 81.3% 100.0%
D3 medium residues 253-364
PDB
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2f0cA02 2.60.40.1830 Mainly Beta › Sandwich › Immunoglobulin-like › Phage tail base-plate Siphoviridae RBP, head domain 0.74 61.0 6.34e-01 99.1% 94.2%
2bseA00 2.60.40.1830 Mainly Beta › Sandwich › Immunoglobulin-like › Phage tail base-plate Siphoviridae RBP, head domain 0.73 61.0 6.29e-01 100.0% 94.4%
2fsdA00 2.60.40.2460 Mainly Beta › Sandwich › Immunoglobulin-like › Phage bIL170 RBP, head domain 0.72 64.0 6.50e-01 100.0% 97.3%
4gklA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.65 49.0 5.33e-01 100.0% 100.0%
4e2oA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.65 45.0 4.95e-01 100.0% 92.0%
4il7A00 2.60.120.1300 Mainly Beta › Sandwich › Jelly Rolls › 0.62 41.0 4.54e-01 88.4% 87.1%
3cc1A02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.60 44.0 4.80e-01 99.1% 96.6%
3vgiA00 2.60.120.180 Mainly Beta › Sandwich › Jelly Rolls › Glycoside hydrolase family 11/12, catalytic domain 0.59 53.0 4.04e-01 100.0% 94.8%
3gzaB02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 39.0 4.17e-01 85.7% 84.7%
2o14A01 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.56 49.0 4.55e-01 100.0% 85.8%
2vzsA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 35.0 3.70e-01 85.7% 71.3%
5e6tA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.55 38.0 4.04e-01 71.4% 98.9%
4lhsA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 42.0 3.86e-01 85.7% 85.2%
2izwC00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 39.0 3.29e-01 79.5% 87.0%
4gioA00 2.60.40.3230 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 37.0 3.92e-01 94.6% 85.4%
1w99A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 46.0 3.90e-01 100.0% 88.0%
3cwvA01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.52 43.0 3.63e-01 92.0% 62.6%
6b9tF02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 44.0 4.50e-01 100.0% 98.2%
1jmxA02 2.40.128.120 Mainly Beta › Beta Barrel › Lipocalin › Quinohemoprotein amine dehydrogenase alpha subunit, domain 2 0.51 39.0 3.95e-01 85.7% 82.6%
1s14B00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.50 43.0 3.75e-01 97.3% 63.5%
2kzbA00 2.60.40.2830 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 36.0 3.64e-01 100.0% 74.6%
1xkiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 31.0 2.98e-01 70.5% 51.6%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588403 5092.1.1.0 beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins 0.75 63.0 6.57e-01 100.0% 98.1%
961561 5092.1.1.4 beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins › Caudo_bapla_RBP 0.75 61.0 6.39e-01 99.1% 95.1%
1156585 5092.1.1.4 beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins › Caudo_bapla_RBP 0.73 61.0 6.16e-01 100.0% 89.4%
4984453 4081.1.1.5 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N 0.60 45.0 3.81e-01 87.5% 46.2%
5004441 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.57 39.0 4.41e-01 95.5% 97.5%
3249733 5084.1.1.30 beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › PF29018 0.55 45.0 3.80e-01 88.4% 87.4%
5003035 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 38.0 3.38e-01 84.8% 47.1%
5056166 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.53 34.0 3.30e-01 92.9% 57.7%
3924218 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.51 40.0 4.03e-01 86.6% 82.6%