Back to structures

rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00147

Bact-Vir

rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00147

Identity

Kingdom:
phage

Quality

86.4 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 1-146
PDB
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bamA00 3.40.91.20 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.70 56.0 4.96e-01 83.6% 67.0%
1y88A01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.69 52.0 5.60e-01 78.1% 96.0%
2vldA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.69 50.0 5.65e-01 75.3% 99.1%
3s1sA01 3.90.1570.30 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.67 55.0 5.29e-01 88.4% 93.5%
4oc8A02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.67 54.0 5.13e-01 86.3% 79.1%
3odhA00 3.40.91.20 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.66 53.0 4.78e-01 83.6% 69.1%
3ijmA00 3.90.1570.20 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.63 53.0 5.38e-01 90.4% 89.0%
3ot2A00 3.90.1570.10 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › tt1808, chain A 0.63 51.0 4.72e-01 84.2% 74.9%
2b78A02 3.30.750.80 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › RNA methyltransferase domain (HRMD) like 0.63 32.0 3.81e-01 70.5% 70.6%
2bgwB01 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 44.0 4.68e-01 76.7% 84.7%
4impA02 3.40.50.11460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 47.0 4.15e-01 82.9% 76.3%
2arhA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 45.0 4.43e-01 78.8% 81.6%
1uhvA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.59 44.0 3.33e-01 76.0% 73.5%
4bxoA01 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 44.0 4.60e-01 82.9% 85.9%
1j24A00 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 43.0 4.53e-01 78.8% 85.0%
6vloD01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 45.0 4.01e-01 82.2% 86.2%
2m9mA00 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 40.0 4.17e-01 78.8% 75.5%
3ixqA01 3.40.50.1360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 44.0 4.41e-01 82.2% 100.0%
1f8iA00 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.56 42.0 3.07e-01 79.5% 55.5%
1i24A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 43.0 3.71e-01 82.2% 92.8%
1srqC02 3.40.50.11210 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Rap/Ran-GAP 0.55 45.0 4.17e-01 87.0% 90.8%
2c4kA01 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 43.0 4.13e-01 82.2% 88.6%
3nyqA01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.55 46.0 3.41e-01 90.4% 42.0%
3qtgA01 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.54 39.0 3.35e-01 74.7% 57.1%
1vb5B02 3.40.50.10470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Translation initiation factor eif-2b; domain 2 0.53 41.0 3.85e-01 81.5% 85.1%
1olmC01 3.40.525.10 Alpha Beta › 3-Layer(aba) Sandwich › Phosphatidylinositol Transfer Protein Sec14p › CRAL-TRIO lipid binding domain 0.52 39.0 3.19e-01 78.1% 69.3%
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.52 37.0 4.10e-01 74.0% 94.0%
5o1pA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 40.0 3.85e-01 83.6% 83.8%
1vc1A00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.51 36.0 4.04e-01 79.5% 97.3%
2v4jA03 3.30.413.10 Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 0.51 38.0 3.56e-01 89.7% 61.7%
3k7lA01 3.40.390.10 Alpha Beta › 3-Layer(aba) Sandwich › Collagenase (Catalytic Domain) › Collagenase (Catalytic Domain) 0.51 44.0 4.03e-01 95.2% 87.3%
3n4eA02 3.20.20.120 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Enolase-like C-terminal domain 0.50 37.0 3.05e-01 74.7% 73.5%
3h74A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 39.0 3.22e-01 83.6% 78.4%
ECOD (77)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
199740 2008.1.1.22 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › MmcB-like 0.82 65.0 6.59e-01 91.1% 82.2%
5081250 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.81 66.0 7.13e-01 93.2% 98.4%
4958464 2008.1.1.205 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF26915 0.81 65.0 7.10e-01 90.4% 100.0%
3589020 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.81 70.0 6.98e-01 90.4% 91.3%
5043832 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.78 62.0 6.83e-01 85.6% 100.0%
4962492 2008.1.1.234 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF26437 0.75 60.0 5.54e-01 84.2% 88.1%
4514544 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.73 60.0 6.03e-01 84.9% 94.5%
4942817 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.73 56.0 6.12e-01 80.8% 96.7%
4930378 2008.1.1.152 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF2130 0.72 58.0 5.88e-01 84.9% 97.2%
4077507 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.72 61.0 5.60e-01 90.4% 90.8%
4999354 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 67.0 6.45e-01 97.9% 90.6%
5077023 2008.1.1.5 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NucS_C 0.71 58.0 5.56e-01 84.9% 100.0%
4432991 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 50.0 3.70e-01 72.6% 50.5%
5049500 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 55.0 5.47e-01 80.1% 95.3%
4958435 2008.1.1.96 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RmuC 0.71 61.0 5.12e-01 90.4% 71.5%
3249727 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 59.0 5.42e-01 89.0% 86.3%
5018208 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 51.0 5.84e-01 78.1% 100.0%
4941226 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.71 55.0 5.83e-01 89.7% 90.7%
5067190 2008.1.1.5 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NucS_C 0.71 56.0 5.49e-01 82.2% 97.4%
5013017 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.70 56.0 5.49e-01 82.2% 99.4%
4955322 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.70 55.0 5.91e-01 81.5% 96.8%
4977513 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.70 58.0 5.76e-01 89.0% 96.1%
4956819 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 50.0 5.67e-01 73.3% 100.0%
4998161 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 55.0 5.45e-01 83.6% 95.5%
5006562 2008.1.1.178 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NA-iREase1 0.69 55.0 5.39e-01 82.2% 98.7%
4941691 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.69 61.0 6.05e-01 95.2% 95.5%
4933915 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.69 59.0 5.73e-01 91.1% 95.6%
4938264 2008.1.1.5 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NucS_C 0.68 49.0 5.30e-01 75.3% 86.4%
5070502 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 52.0 5.31e-01 79.5% 100.0%
4970960 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 59.0 5.86e-01 93.2% 100.0%
4983302 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 59.0 6.02e-01 91.1% 97.1%
4960251 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.68 58.0 6.02e-01 89.7% 100.0%
5079137 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.68 55.0 5.69e-01 85.6% 100.0%
4940727 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.68 44.0 5.25e-01 78.1% 96.0%
3956485 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.68 56.0 5.47e-01 88.4% 87.5%
5004036 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.68 54.0 5.82e-01 84.2% 100.0%
5076295 2008.1.1.107 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.68 54.0 5.64e-01 83.6% 100.0%
5009348 2008.1.1.108 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.68 47.0 5.42e-01 78.8% 98.1%
3929482 2008.6.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains 0.67 55.0 5.31e-01 86.3% 96.2%
3509755 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 50.0 5.02e-01 78.8% 85.3%
5032442 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.66 54.0 5.64e-01 87.7% 93.3%
4411889 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 54.0 4.72e-01 87.7% 87.7%
5057130 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.66 49.0 5.21e-01 80.1% 88.8%
4938798 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.66 55.0 5.53e-01 88.4% 89.7%
5044478 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 41.0 4.96e-01 71.9% 100.0%
3182836 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.65 56.0 5.30e-01 91.8% 96.5%
4604110 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.65 51.0 4.75e-01 82.2% 80.6%
4494448 2008.1.1.183 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27227 0.64 51.0 5.34e-01 84.9% 90.4%
3210459 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 52.0 4.81e-01 84.9% 84.4%
11007 2008.1.1.8 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › BamHI 0.64 51.0 4.57e-01 83.6% 62.5%
3385518 2008.1.1.108 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.64 53.0 5.02e-01 87.7% 92.4%
4209016 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.64 52.0 4.49e-01 87.7% 85.2%
136499 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 53.0 5.38e-01 90.4% 89.0%
4955102 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 50.0 5.15e-01 82.2% 91.1%
5015831 2008.1.1.107 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.63 51.0 5.34e-01 86.3% 100.0%
3733745 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 51.0 4.54e-01 87.0% 81.0%
4043610 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 48.0 4.01e-01 82.2% 56.4%
3723013 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 51.0 4.45e-01 90.4% 75.6%
4952892 2007.1.3.4 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › B12-binding 0.61 47.0 4.65e-01 84.2% 77.3%
3506045 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 51.0 4.74e-01 91.1% 94.1%
3486991 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 45.0 4.61e-01 90.4% 83.6%
3838560 2008.1.1.78 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_endonuc 0.58 46.0 4.18e-01 84.9% 63.1%
3199204 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 40.0 4.61e-01 76.0% 100.0%
3460821 2002.1.1.11 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › PK 0.56 42.0 3.60e-01 79.5% 94.3%
4002931 2006.1.4.6 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › Fcf1 0.55 36.0 3.88e-01 84.2% 77.5%
3181798 2007.3.1.1 a/b three-layered sandwiches › Flavodoxin-like › Succinyl-CoA synthetase domains › Succinyl-CoA synthetase domains › Ligase_CoA 0.55 45.0 4.14e-01 87.0% 98.4%
4029370 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.55 47.0 3.38e-01 93.8% 93.7%
3894523 2007.1.2.4 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.54 44.0 4.02e-01 87.0% 100.0%
3483498 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 45.0 4.25e-01 89.0% 93.7%
3231992 247.1.1.29 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_2, Anti-Pycsar_Apyc1 0.54 44.0 2.88e-01 89.7% 90.8%
5054865 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.53 44.0 3.71e-01 89.7% 89.2%
5057923 7512.1.1.30 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_4 0.53 42.0 3.89e-01 84.9% 93.1%
4045953 2007.1.2.10 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Peripla_BP_3 0.52 47.0 4.38e-01 99.3% 98.9%
4931776 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 40.0 3.86e-01 87.7% 70.0%
4375903 2003.1.5.174 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_15 0.52 45.0 3.28e-01 94.5% 99.7%
3172319 246.2.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.51 40.0 3.52e-01 82.9% 90.0%
4134967 327.12.1.1 a+b two layers › Alpha-lytic protease prodomain-like › UbiD C-terminal domain-like › UbiD C-terminal domain-like › UbiD_C 0.51 36.0 3.03e-01 72.6% 87.5%