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MK088078.1__AYP29010.1__AS1_30__00030

Bact-Vir

MK088078.1__AYP29010.1__AS1_30__00030

Identity

Accession:
MK088078 ↗
Kingdom:
phage

Quality

74.5 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 high residues 2-63
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.95 76.0 7.66e-01 90.3% 83.9%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.91 73.0 5.48e-01 90.3% 38.8%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.90 73.0 5.94e-01 90.3% 50.0%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.89 75.0 6.61e-01 90.3% 65.1%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.88 75.0 6.53e-01 90.3% 87.5%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.88 72.0 7.24e-01 87.1% 87.1%
3gi8C00 1.20.1740.10 Mainly Alpha › Up-down Bundle › Amino acid/polyamine transporter I › Amino acid/polyamine transporter I 0.87 72.0 4.20e-01 87.1% 12.6%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.87 73.0 4.91e-01 90.3% 28.1%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.87 73.0 7.28e-01 90.3% 87.5%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.87 67.0 4.66e-01 82.3% 28.5%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.87 76.0 7.20e-01 93.5% 85.9%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.87 71.0 7.19e-01 87.1% 93.4%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.86 65.0 5.94e-01 90.3% 61.7%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 66.0 6.74e-01 82.3% 96.7%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.85 79.0 6.34e-01 98.4% 68.2%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.84 77.0 5.24e-01 100.0% 41.0%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.83 67.0 6.94e-01 87.1% 93.1%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.83 66.0 5.92e-01 85.5% 87.1%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.82 64.0 6.53e-01 90.3% 86.9%
4adzA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.82 74.0 6.48e-01 100.0% 86.7%
1ailA00 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.81 60.0 5.74e-01 77.4% 74.3%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.81 68.0 5.88e-01 90.3% 60.9%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.81 62.0 6.43e-01 87.1% 87.9%
1q6aA00 1.10.1240.30 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain 0.81 58.0 4.78e-01 75.8% 43.9%
2d4uB00 1.20.120.30 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain 0.80 66.0 4.88e-01 90.3% 36.1%
5lbmA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.80 69.0 6.21e-01 93.5% 89.2%
2ficB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.80 66.0 4.56e-01 90.3% 36.8%
1br0A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 63.0 5.00e-01 90.3% 44.2%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.79 66.0 5.80e-01 93.5% 62.6%
1jmwA00 1.20.120.30 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain 0.78 64.0 4.81e-01 90.3% 38.4%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.77 62.0 5.28e-01 87.1% 56.6%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.77 62.0 6.06e-01 90.3% 88.1%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 58.0 5.94e-01 85.5% 88.1%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 63.0 5.94e-01 88.7% 75.7%
3gnlB02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 55.0 5.33e-01 77.4% 75.0%
1rq0A01 6.10.140.160 Special › Helix non-globular › Helix Hairpins › 0.74 60.0 5.42e-01 87.1% 78.3%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.74 60.0 4.25e-01 91.9% 28.5%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.74 63.0 5.77e-01 100.0% 88.2%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 58.0 4.91e-01 90.3% 50.9%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.73 60.0 5.97e-01 95.2% 87.3%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.72 47.0 4.80e-01 71.0% 67.7%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 57.0 5.77e-01 91.9% 88.9%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 54.0 5.54e-01 83.9% 91.4%
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.69 51.0 5.60e-01 79.0% 100.0%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 57.0 5.54e-01 95.2% 85.1%
2ycdA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 52.0 4.36e-01 88.7% 47.9%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.67 54.0 4.56e-01 90.3% 82.6%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.66 54.0 4.54e-01 95.2% 78.3%
2jaeA03 1.20.1440.240 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.64 52.0 4.56e-01 95.2% 70.3%
4id0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 51.0 4.33e-01 93.5% 77.7%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.62 48.0 4.49e-01 83.9% 69.7%
1vi0A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 48.0 3.73e-01 93.5% 46.9%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3758339 5086.1.1.65 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › USHBP1_PDZ-bd 0.96 73.0 6.24e-01 83.9% 54.4%
3593736 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.93 80.0 6.60e-01 90.3% 63.0%
3492576 4177.1.1.5 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.90 75.0 5.07e-01 88.7% 28.0%
5063778 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.90 76.0 4.43e-01 90.3% 27.8%
3875112 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.89 76.0 4.60e-01 90.3% 20.6%
3497897 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.89 75.0 7.22e-01 90.3% 80.0%
5025813 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.88 74.0 6.03e-01 90.3% 50.9%
4429833 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.88 75.0 6.03e-01 90.3% 50.9%
3518412 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.88 74.0 4.92e-01 90.3% 24.9%
3741234 605.2.1.3 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.88 75.0 5.94e-01 90.3% 48.7%
4304756 605.2.1.3 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.88 74.0 6.00e-01 90.3% 50.9%
4470267 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.87 73.0 5.95e-01 90.3% 50.9%
3932692 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.87 73.0 6.36e-01 90.3% 62.2%
3361162 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.87 74.0 5.70e-01 90.3% 44.8%
4159687 304.58.1.0 a+b two layers › Alpha-beta plaits › FepE-like › FepE-like 0.87 73.0 4.61e-01 90.3% 19.6%
4273807 314.1.1.0 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.87 73.0 4.26e-01 90.3% 12.7%
5077093 4323.1.1.0 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.87 73.0 5.52e-01 90.3% 41.5%
4937169 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.86 72.0 5.87e-01 90.3% 50.9%
3970810 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.86 73.0 6.63e-01 91.9% 76.2%
3714244 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.86 66.0 6.78e-01 82.3% 85.0%
4120406 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.85 71.0 5.80e-01 90.3% 50.9%
3923888 4177.1.1.5 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.85 77.0 5.08e-01 96.8% 70.0%
4175087 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.85 70.0 5.75e-01 90.3% 50.9%
4964379 5039.1.1.1 alpha bundles › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › COX3 0.85 70.0 4.55e-01 90.3% 22.7%
4146694 192.29.1.277 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Dynamitin 0.84 69.0 6.82e-01 87.1% 83.1%
4231284 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.84 69.0 5.69e-01 90.3% 50.9%
3836003 3684.1.1.2 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1 0.83 69.0 4.71e-01 90.3% 28.3%
5044642 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.83 75.0 4.86e-01 98.4% 45.1%
3359325 4207.1.2.0 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region 0.83 67.0 5.24e-01 87.1% 44.0%
4231809 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.82 69.0 4.01e-01 90.3% 11.8%
2663455 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.82 65.0 6.37e-01 87.1% 95.6%
3355246 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.81 64.0 5.90e-01 90.3% 66.3%
3988454 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.80 66.0 6.39e-01 91.9% 90.0%
3783055 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.79 62.0 5.11e-01 90.3% 48.2%
5078048 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.76 61.0 5.70e-01 90.3% 72.0%
3746549 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.75 61.0 4.88e-01 90.3% 44.8%
4109644 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.75 60.0 4.59e-01 88.7% 37.9%
4030667 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.74 59.0 5.28e-01 88.7% 61.1%
5045248 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.72 56.0 5.17e-01 88.7% 64.7%
3410365 2004.1.1.184 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 0.71 61.0 3.78e-01 100.0% 27.1%
3812703 3758.1.1.7 alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › BPS1 0.71 56.0 3.91e-01 90.3% 65.0%
3531403 3914.1.1.0 alpha bundles › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain 0.70 50.0 5.41e-01 87.1% 94.0%
3226467 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.70 56.0 4.40e-01 88.7% 51.1%
4211233 4120.1.1.60 few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › GlutR_dimer 0.63 49.0 4.57e-01 87.1% 77.5%
3927398 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.61 49.0 4.19e-01 90.3% 83.8%