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NC_062744.1__YP_010356613.1__M1M22_gp030__00085

Bact-Vir

NC_062744.1__YP_010356613.1__M1M22_gp030__00085

Identity

Accession:
NC_062744 ↗
Kingdom:
phage

Quality

94.6 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 medium residues 6-99
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4lubB01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.53 26.0 2.59e-01 97.9% 41.0%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4392521 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.83 73.0 5.03e-01 93.6% 49.7%
4247735 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.83 73.0 4.17e-01 93.6% 18.0%
5021943 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.82 73.0 5.28e-01 94.7% 53.3%
3387986 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.82 72.0 5.19e-01 93.6% 55.8%
5064206 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.81 70.0 5.04e-01 93.6% 51.5%
4597944 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.80 74.0 4.92e-01 100.0% 43.8%
5063088 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.80 70.0 4.82e-01 93.6% 49.0%
4927000 2008.1.1.217 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UvrD-helicase 0.79 73.0 4.09e-01 100.0% 12.5%
5005260 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.79 73.0 5.19e-01 100.0% 50.4%
3959053 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.77 71.0 5.62e-01 100.0% 73.5%
4180620 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.77 58.0 4.54e-01 94.7% 40.0%
3976411 2008.1.1.58 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF3799 0.75 68.0 4.93e-01 100.0% 51.2%
3226148 2008.1.1.29 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Dna2 0.74 63.0 4.45e-01 92.6% 50.9%
4943727 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.74 65.0 4.52e-01 95.7% 50.0%
3288745 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.72 66.0 5.06e-01 100.0% 56.1%
2739701 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.69 62.0 5.08e-01 100.0% 58.7%
5063119 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.68 60.0 4.53e-01 98.9% 57.8%
4324924 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.67 59.0 4.89e-01 95.7% 61.8%
5066100 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.64 58.0 4.29e-01 98.9% 41.7%
D2 medium residues 100-181
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7mi4A01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.74 57.0 4.23e-01 100.0% 33.8%
3u4qA06 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.74 59.0 4.22e-01 97.6% 31.4%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.72 64.0 4.57e-01 100.0% 35.6%
3l0aA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.71 63.0 4.30e-01 100.0% 29.3%
3syyA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.69 55.0 4.12e-01 100.0% 36.1%
8d3mI01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.67 57.0 4.19e-01 100.0% 36.2%
5zyuA01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.66 58.0 4.27e-01 100.0% 38.3%
2gw6A01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.65 48.0 4.37e-01 100.0% 56.9%
1b96A00 3.40.600.10 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › DNA mismatch repair MutH/Restriction endonuclease, type II 0.62 55.0 3.93e-01 98.8% 57.0%
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.62 48.0 4.52e-01 100.0% 68.6%
2odhA01 3.40.210.20 Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › MvaI/BcnI restriction endonuclease, catalytic domain 0.60 41.0 3.63e-01 100.0% 47.2%
2fgyA03 3.30.1330.140 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Carboxysome Shell Carbonic Anhydrase, C-terminal domain 0.59 51.0 4.63e-01 98.8% 96.6%
4kreA04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 49.0 3.57e-01 98.8% 67.7%
1sbpA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.58 38.0 3.21e-01 80.5% 37.1%
3vs8H00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.58 47.0 3.03e-01 89.0% 27.9%
1knvB00 3.40.91.10 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.57 48.0 3.36e-01 95.1% 65.3%
1j33A02 3.40.50.10210 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (CobT), large domain 0.56 44.0 3.10e-01 86.6% 37.7%
1jdpB02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 41.0 3.10e-01 85.4% 30.5%
8dqoB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.55 48.0 3.75e-01 100.0% 76.6%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.55 48.0 4.01e-01 100.0% 74.8%
1f0iA01 3.30.870.10 Alpha Beta › 2-Layer Sandwich › Endonuclease; Chain A › Endonuclease Chain A 0.55 48.0 3.54e-01 97.6% 77.1%
1tx3D00 3.40.600.10 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › DNA mismatch repair MutH/Restriction endonuclease, type II 0.54 47.0 3.46e-01 100.0% 46.3%
2iueA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.54 41.0 3.07e-01 93.9% 32.1%
3fcsB03 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.54 45.0 3.22e-01 92.7% 37.7%
4p1zA00 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 38.0 3.39e-01 84.1% 48.8%
1bvuA01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.53 41.0 3.49e-01 87.8% 47.9%
4ua8A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.52 33.0 2.60e-01 82.9% 27.3%
5t8uB01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.51 40.0 2.92e-01 87.8% 60.3%
5g5tA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 38.0 3.20e-01 87.8% 42.9%
5k9aA00 2.40.260.10 Mainly Beta › Beta Barrel › Sortase; Chain: A; › Sortase 0.51 44.0 3.31e-01 97.6% 78.6%
2zigA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 40.0 2.94e-01 92.7% 30.1%
1fs0G01 3.40.1380.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › ATP synthase, F1 complex, gamma subunit 0.51 38.0 3.31e-01 80.5% 85.4%
3tsaA02 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.50 34.0 2.76e-01 98.8% 32.8%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4101307 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.80 60.0 3.30e-01 98.8% 5.2%
None 0.79 60.0 3.30e-01 97.6% 5.5%
4414555 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.79 59.0 4.03e-01 97.6% 24.7%
4310493 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.75 60.0 4.18e-01 96.3% 28.2%
3594135 2008.2.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.68 54.0 5.06e-01 97.6% 70.0%
3923276 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.65 58.0 3.99e-01 100.0% 66.7%
3600391 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.63 46.0 4.01e-01 89.0% 50.4%
3234687 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.63 56.0 3.93e-01 98.8% 73.6%
4063889 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.62 54.0 4.87e-01 98.8% 70.8%
4139009 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.62 53.0 4.78e-01 98.8% 68.7%
5038786 7565.1.1.1 a/b three-layered sandwiches › Resolvase-like › Resolvase-like › Resolvase-like › Resolvase 0.60 41.0 3.77e-01 86.6% 52.7%
3517980 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.59 52.0 3.56e-01 98.8% 65.4%
3242671 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.59 45.0 3.34e-01 95.1% 31.2%
3964365 7573.1.1.1 a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › Pribosyltran 0.59 38.0 3.03e-01 91.5% 29.7%
3227078 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.59 43.0 3.28e-01 91.5% 34.1%
3235648 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.58 43.0 3.29e-01 92.7% 33.8%
3628813 2005.1.1.4 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Asn_synthase 0.57 45.0 3.12e-01 89.0% 70.3%
5025341 330.2.1.0 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.57 39.0 3.71e-01 80.5% 58.0%
3516954 3105.1.1.0 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related 0.56 50.0 3.99e-01 100.0% 69.1%
3597550 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.56 40.0 3.63e-01 91.5% 52.5%
3272731 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.56 46.0 3.40e-01 90.2% 46.8%
3175102 2008.1.1.79 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Pet127 0.56 51.0 3.26e-01 100.0% 29.2%
4030572 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.55 46.0 3.40e-01 93.9% 99.6%
3615005 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.55 44.0 3.11e-01 96.3% 26.7%
4015689 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.55 43.0 3.16e-01 85.4% 60.9%
3601777 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.55 42.0 3.16e-01 97.6% 31.4%
3187631 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.55 45.0 3.14e-01 90.2% 36.1%
2531242 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.54 44.0 2.86e-01 91.5% 22.4%
5012774 324.1.1.0 a+b two layers › OsmC-like › OsmC-like › OsmC-like 0.54 37.0 3.54e-01 72.0% 61.1%
3265260 2006.1.6.41 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › vWA_SIBA-E 0.54 43.0 3.26e-01 93.9% 35.1%
3933149 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.54 41.0 3.21e-01 84.1% 52.8%
5079404 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.54 43.0 3.26e-01 89.0% 49.5%
3187302 2004.1.1.163 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › KTI12 0.54 37.0 2.80e-01 73.2% 84.1%
5058147 2003.1.10.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain 0.53 40.0 3.75e-01 96.3% 63.8%
3225505 2007.1.2.4 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.53 38.0 2.95e-01 82.9% 31.8%
3227080 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.53 40.0 3.12e-01 95.1% 34.0%
3212146 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.53 42.0 3.32e-01 90.2% 77.3%
None 0.52 39.0 2.46e-01 81.7% 19.6%
3972821 2006.1.6.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.52 39.0 2.87e-01 82.9% 68.1%
3222965 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.52 42.0 3.34e-01 92.7% 44.9%
3590921 2006.1.6.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.52 37.0 2.68e-01 76.8% 77.0%
3731645 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.51 45.0 3.59e-01 100.0% 57.8%
5046274 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.51 39.0 3.00e-01 84.1% 49.3%
4973731 225.1.1.3 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c 0.51 35.0 3.18e-01 80.5% 50.9%
3214871 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.51 37.0 2.97e-01 98.8% 35.7%
3933150 2006.1.6.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.51 38.0 2.88e-01 95.1% 30.0%
4805912 206.1.3.12 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › TTL 0.51 35.0 3.05e-01 72.0% 56.5%
4018546 2004.1.1.73 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.50 41.0 2.96e-01 93.9% 40.4%
3565981 2006.1.6.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA 0.50 42.0 3.18e-01 93.9% 37.6%