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NC_054725.1__YP_010059325.1__KHQ85_gp075__00075

Bact-Vir

NC_054725.1__YP_010059325.1__KHQ85_gp075__00075

Identity

Accession:
NC_054725 ↗
Kingdom:
phage

Quality

81.0 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 4-84
PDB
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4q4hA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.81 58.0 3.76e-01 74.1% 19.5%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.80 55.0 5.74e-01 72.8% 77.0%
1sr2A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.80 55.0 4.80e-01 80.2% 49.1%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.79 63.0 5.26e-01 84.0% 60.9%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.79 57.0 5.30e-01 75.3% 80.0%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.79 56.0 5.15e-01 75.3% 68.9%
3pltA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.78 56.0 4.09e-01 75.3% 59.8%
1a7eA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.78 63.0 5.54e-01 86.4% 63.6%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 56.0 5.72e-01 74.1% 80.8%
2lseA00 1.20.120.1360 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.78 58.0 5.38e-01 85.2% 62.4%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.78 56.0 5.49e-01 75.3% 75.9%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 62.0 5.63e-01 86.4% 93.5%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.77 55.0 5.47e-01 75.3% 80.0%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.74 53.0 4.35e-01 75.3% 53.1%
3craB01 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.74 50.0 4.91e-01 70.4% 65.1%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.74 53.0 5.37e-01 75.3% 86.3%
2v5cA03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.73 60.0 5.08e-01 87.7% 66.2%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.73 58.0 5.20e-01 86.4% 74.6%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.73 52.0 5.00e-01 75.3% 66.0%
2hjmA01 1.20.120.460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like 0.73 57.0 5.63e-01 90.1% 80.2%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.72 58.0 5.04e-01 88.9% 67.2%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.71 52.0 4.84e-01 85.2% 62.0%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 51.0 4.28e-01 75.3% 53.2%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.71 60.0 4.55e-01 93.8% 88.3%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.71 48.0 4.31e-01 70.4% 50.4%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 62.0 5.84e-01 98.8% 88.7%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 50.0 5.25e-01 74.1% 83.3%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.70 55.0 5.69e-01 85.2% 98.7%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 50.0 5.31e-01 76.5% 94.2%
8e9gJ01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.68 56.0 4.42e-01 90.1% 44.3%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.68 48.0 4.66e-01 74.1% 92.2%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.68 47.0 4.59e-01 72.8% 80.2%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 59.0 5.60e-01 100.0% 95.9%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.67 53.0 5.47e-01 86.4% 100.0%
6humG01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.67 56.0 4.53e-01 92.6% 48.1%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.67 48.0 4.55e-01 75.3% 94.8%
8befJ01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.67 55.0 4.36e-01 91.4% 44.1%
2rkkA01 1.25.40.270 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein vta1 0.67 55.0 4.47e-01 91.4% 55.1%
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.66 52.0 4.41e-01 86.4% 63.6%
7zm7601 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.65 54.0 4.34e-01 92.6% 45.5%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.65 56.0 5.48e-01 93.8% 93.2%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.65 48.0 4.45e-01 77.8% 61.8%
2wzkA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.65 47.0 4.23e-01 95.1% 55.5%
3gonA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.63 51.0 4.32e-01 87.7% 61.9%
6a7hA01 1.20.140.180 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.62 51.0 4.38e-01 92.6% 74.2%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.62 48.0 3.99e-01 82.7% 95.7%
1wfdA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.60 53.0 5.09e-01 98.8% 95.7%
4uskA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.59 47.0 3.81e-01 86.4% 58.4%
4wr4A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 42.0 3.91e-01 80.2% 76.2%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3614617 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.86 61.0 4.94e-01 74.1% 71.7%
3437925 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.83 59.0 5.59e-01 74.1% 64.2%
3968763 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 0.82 59.0 6.00e-01 75.3% 76.2%
3802185 192.8.1.359 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF641 0.81 57.0 6.07e-01 72.8% 84.3%
4253651 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.81 70.0 6.93e-01 93.8% 94.1%
5049840 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 0.79 57.0 5.93e-01 75.3% 82.7%
4932209 3843.1.1.6 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MrpF_PhaF 0.78 59.0 6.02e-01 79.0% 87.5%
5035734 159.1.1.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.78 52.0 4.48e-01 70.4% 44.8%
5041060 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 0.77 55.0 5.71e-01 75.3% 80.0%
3725161 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.77 68.0 6.07e-01 97.5% 79.1%
4384750 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.77 55.0 5.23e-01 75.3% 74.7%
4303085 3755.3.1.467 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DRC7_C 0.76 54.0 4.75e-01 75.3% 50.0%
4477580 5086.1.1.118 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › BBS2_hp 0.76 54.0 5.34e-01 74.1% 72.9%
3784728 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 64.0 4.32e-01 91.4% 33.7%
3556027 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 0.76 52.0 5.13e-01 75.3% 67.1%
3855461 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.76 52.0 5.12e-01 75.3% 67.1%
3491418 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.76 52.0 5.40e-01 71.6% 84.0%
3783832 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.75 66.0 5.52e-01 98.8% 67.8%
3273862 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.75 56.0 5.30e-01 77.8% 77.9%
4514051 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.75 50.0 4.39e-01 91.4% 47.8%
3520009 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.75 54.0 5.50e-01 75.3% 87.5%
4565034 159.1.3.3 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › putative NTP pyrophosphohydrolase Exig_1061 › MazG 0.74 51.0 4.36e-01 74.1% 45.6%
4948609 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.74 64.0 6.19e-01 95.1% 98.9%
3837815 2004.1.1.433 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23 0.74 53.0 3.11e-01 75.3% 11.5%
4003222 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.74 52.0 4.89e-01 74.1% 77.0%
3088275 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.74 63.0 6.04e-01 96.3% 87.4%
4018440 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.74 53.0 5.06e-01 75.3% 82.1%
3484742 3922.1.1.197 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › BBS2_hp 0.73 53.0 5.24e-01 75.3% 87.1%
4988301 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.73 53.0 4.34e-01 77.8% 41.3%
4930533 3843.1.1.6 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MrpF_PhaF 0.73 59.0 6.00e-01 86.4% 95.0%
3595707 5086.1.1.118 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › BBS2_hp 0.72 52.0 4.43e-01 75.3% 67.7%
3938941 109.4.1.649 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.72 63.0 5.23e-01 93.8% 56.9%
4983118 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.72 49.0 4.71e-01 75.3% 61.1%
3469701 3755.1.1.0 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.71 51.0 3.68e-01 75.3% 28.1%
3892495 604.1.1.7 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › SR_plectin_7 0.70 62.0 5.43e-01 96.3% 96.7%
3487862 212.1.1.0 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.70 50.0 3.60e-01 75.3% 30.8%
3581944 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.70 49.0 4.38e-01 72.8% 51.3%
3999040 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.70 62.0 4.93e-01 100.0% 91.8%
4996707 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.70 59.0 6.02e-01 92.6% 100.0%
4928539 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 0.70 48.0 4.09e-01 75.3% 44.5%
3484910 604.1.1.1 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.69 61.0 5.34e-01 96.3% 100.0%
4386662 3291.1.1.158 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Seryl_tRNA_N 0.69 49.0 4.42e-01 75.3% 54.8%
5045531 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.69 60.0 5.96e-01 98.8% 100.0%
3559003 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.69 48.0 4.55e-01 74.1% 91.0%
2323907 212.1.1.24 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 0.69 51.0 3.66e-01 77.8% 32.2%
3917888 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.67 47.0 4.19e-01 72.8% 53.9%
2890670 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.66 46.0 3.86e-01 82.7% 42.4%
3995294 1065.1.1.0 alpha bundles › SPX domain › SPX domain › SPX domain 0.66 60.0 5.15e-01 100.0% 96.8%
3495590 109.4.1.649 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.66 54.0 4.12e-01 91.4% 94.5%
3403225 109.4.1.649 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF4807 0.65 56.0 5.10e-01 95.1% 100.0%