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NC_055053.1__YP_010083991.1__KMD53_gp11__00011

Bact-Vir

NC_055053.1__YP_010083991.1__KMD53_gp11__00011

Identity

Accession:
NC_055053 ↗
Kingdom:
phage

Quality

95.0 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 medium residues 43-143
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01724.22 best DUF29 98.2 6.60e-28 98.0% 71.7%
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 54.0 4.82e-01 78.2% 55.6%
2pybA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.73 54.0 4.66e-01 77.2% 55.0%
1lb3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.71 52.0 4.31e-01 77.2% 45.5%
1fp3A00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.69 52.0 3.42e-01 78.2% 84.3%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.68 50.0 4.28e-01 78.2% 50.7%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 53.0 5.05e-01 97.0% 71.2%
6bl6B01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.67 54.0 3.82e-01 88.1% 87.3%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 51.0 5.26e-01 100.0% 84.7%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.65 43.0 4.30e-01 98.0% 65.7%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.65 43.0 4.29e-01 100.0% 65.1%
8sbeA01 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.65 45.0 3.63e-01 72.3% 76.0%
1otkA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.64 57.0 4.27e-01 97.0% 97.1%
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.64 47.0 4.59e-01 100.0% 70.0%
5u1aL00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.64 44.0 3.73e-01 77.2% 43.4%
1o5hA00 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.63 50.0 4.01e-01 100.0% 43.5%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.63 42.0 4.24e-01 100.0% 69.0%
5x56B00 1.20.58.810 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Photosystem II Pbs27 0.62 50.0 4.96e-01 100.0% 83.8%
3nrxA00 1.20.58.1520 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 51.0 4.75e-01 100.0% 73.2%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.60 43.0 3.65e-01 77.2% 45.4%
3ezuA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.60 46.0 3.72e-01 79.2% 50.0%
3t5vA00 1.25.40.990 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.60 57.0 3.92e-01 100.0% 49.5%
3cbuA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.59 49.0 4.47e-01 98.0% 67.9%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.58 48.0 4.46e-01 100.0% 70.4%
2cmrA00 1.20.58.1860 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 54.0 4.26e-01 100.0% 52.1%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 54.0 4.30e-01 100.0% 56.5%
2lmgA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.57 40.0 4.68e-01 75.2% 98.6%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.57 53.0 4.84e-01 100.0% 78.1%
2f07B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 49.0 4.05e-01 100.0% 89.3%
4k0dA00 1.20.120.1730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 46.0 4.11e-01 100.0% 62.9%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.56 41.0 3.62e-01 100.0% 51.7%
2dnxA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 52.0 4.72e-01 100.0% 76.9%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 49.0 4.75e-01 100.0% 85.7%
1hx8A02 1.20.58.150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › ANTH domain 0.55 45.0 4.29e-01 100.0% 77.8%
2m6bA00 1.20.58.390 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain 0.54 42.0 3.76e-01 85.1% 78.7%
1h99A01 1.10.1790.10 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain 0.54 37.0 3.70e-01 83.2% 68.3%
4me9B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 47.0 3.90e-01 100.0% 71.0%
1aepA00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.53 38.0 3.35e-01 74.3% 70.6%
4hkaA01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 46.0 3.34e-01 97.0% 79.9%
7xrxB01 1.20.1420.20 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › M75 peptidase, HXXE motif 0.53 47.0 3.18e-01 100.0% 45.3%
3juiA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 42.0 3.57e-01 94.1% 50.6%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 37.0 3.68e-01 77.2% 98.2%
2np9A01 1.20.58.1300 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 46.0 4.16e-01 98.0% 76.9%
2g2dA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.51 44.0 3.76e-01 94.1% 67.5%
1kqfC00 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.51 46.0 3.58e-01 100.0% 72.7%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.50 36.0 3.60e-01 75.2% 78.1%
6t0bc02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.50 45.0 3.66e-01 100.0% 93.7%
2pbiA02 1.10.1240.60 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.50 36.0 3.66e-01 76.2% 77.2%
ECOD (64)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3176663 603.1.1.207 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF30350 0.71 53.0 4.84e-01 100.0% 60.0%
3712032 2004.1.1.1 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA 0.71 50.0 3.59e-01 98.0% 27.7%
4935430 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.71 56.0 5.61e-01 85.1% 85.7%
3605285 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.69 56.0 4.88e-01 100.0% 59.3%
4015817 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 45.0 2.88e-01 100.0% 14.5%
3716331 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 51.0 4.07e-01 99.0% 42.3%
3481310 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.67 48.0 5.11e-01 99.0% 84.4%
3594615 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.66 46.0 5.07e-01 100.0% 91.3%
4025271 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.66 53.0 5.37e-01 100.0% 85.0%
4929553 601.18.1.33 alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › PF30769 0.66 48.0 4.89e-01 100.0% 77.0%
3784566 604.1.1.191 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29057 0.65 55.0 5.54e-01 99.0% 90.0%
3206884 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.64 50.0 3.86e-01 84.2% 70.2%
5041256 601.4.1.91 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › PF30769 0.64 51.0 5.11e-01 100.0% 81.9%
4944331 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.64 46.0 3.82e-01 100.0% 42.2%
3398252 601.4.1.2 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › NIT 0.64 51.0 4.62e-01 100.0% 64.6%
3692148 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.63 47.0 4.08e-01 85.1% 52.7%
4013992 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.63 54.0 4.54e-01 100.0% 57.5%
3356095 601.37.1.1 alpha bundles › Four-helical up-and-down bundle › Photosystem II lipoprotein Psb27 › Photosystem II lipoprotein Psb27 › PSII_Pbs27 0.63 48.0 4.53e-01 100.0% 68.3%
3597956 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.62 48.0 5.23e-01 100.0% 96.5%
3941457 1203.1.2.3 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › YiaAB 0.62 47.0 4.51e-01 81.2% 72.5%
5046834 604.5.1.1 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU_div 0.61 51.0 3.94e-01 89.1% 85.1%
5076692 604.5.1.2 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.61 51.0 3.99e-01 89.1% 95.1%
4948915 604.5.1.2 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.61 51.0 3.96e-01 89.1% 86.1%
4996913 604.5.1.1 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU_div 0.61 52.0 4.07e-01 100.0% 45.4%
4169938 3684.1.1.44 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › DAHL 0.60 47.0 4.51e-01 100.0% 73.9%
3610944 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.59 43.0 4.30e-01 97.0% 74.0%
4998695 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.59 48.0 4.58e-01 100.0% 74.2%
3254719 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.59 48.0 4.91e-01 100.0% 92.6%
3675605 603.1.1.17 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › SNARE 0.59 53.0 3.92e-01 97.0% 62.5%
3337401 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.58 49.0 3.62e-01 89.1% 90.2%
3735296 603.5.1.0 alpha bundles › STAT-like › FlgN-like › FlgN-like 0.57 52.0 4.12e-01 97.0% 53.3%
3229297 604.5.1.40 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › DUF19 0.57 41.0 3.65e-01 100.0% 51.7%
4958131 109.10.1.0 alpha superhelices › Repetitive alpha hairpins › Translin › Translin 0.57 53.0 4.12e-01 100.0% 52.2%
3195245 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.57 43.0 3.58e-01 82.2% 78.9%
4023594 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.57 50.0 4.40e-01 98.0% 66.2%
5028679 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.56 43.0 4.27e-01 79.2% 83.5%
3676484 603.1.1.119 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF4220 0.56 51.0 3.89e-01 100.0% 93.0%
3665289 109.3.1.31 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF4220 0.56 51.0 3.76e-01 100.0% 98.4%
3304305 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.56 51.0 4.50e-01 100.0% 89.0%
3237197 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.56 51.0 4.84e-01 100.0% 84.2%
5028238 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.55 51.0 4.35e-01 100.0% 79.1%
4134938 601.3.1.14 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PF27870 0.55 39.0 3.79e-01 100.0% 65.2%
5079588 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.55 41.0 4.31e-01 79.2% 95.6%
3388149 129.1.1.5 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › Ferric_reduct 0.55 50.0 4.20e-01 100.0% 83.5%
3579590 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.55 50.0 4.47e-01 100.0% 97.9%
5007869 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.55 41.0 4.13e-01 98.0% 79.0%
3297600 621.1.1.7 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › EMC6 0.55 38.0 3.89e-01 73.3% 77.0%
5059963 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.54 42.0 3.79e-01 99.0% 59.3%
4927019 3457.1.1.1 alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.53 42.0 3.20e-01 85.1% 93.6%
4997925 3758.1.1.114 alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › CA109-like 0.52 47.0 3.58e-01 100.0% 86.3%
3438470 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.52 47.0 3.65e-01 100.0% 83.6%
5083305 601.33.1.1 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.52 48.0 4.23e-01 99.0% 78.6%
3656551 109.23.1.2 alpha superhelices › Repetitive alpha hairpins › C-terminal domain in vacuolar protein sorting-associated protein 54 › C-terminal domain in vacuolar protein sorting-associated protein 54 › ZW10_C2 0.52 46.0 3.84e-01 99.0% 80.6%
3438595 109.3.1.31 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › DUF4220 0.52 46.0 3.55e-01 100.0% 91.9%
3622654 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.52 47.0 3.74e-01 100.0% 67.5%
5054050 3896.1.1.0 alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase 0.52 46.0 3.74e-01 100.0% 92.3%
5071640 3457.1.1.1 alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.52 42.0 3.45e-01 88.1% 94.2%
3235726 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.51 43.0 3.64e-01 89.1% 72.5%
3230744 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.51 46.0 4.16e-01 100.0% 77.9%
3523303 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 45.0 3.70e-01 100.0% 86.7%
3185412 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 48.0 4.73e-01 100.0% 96.2%
5023839 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.51 45.0 3.66e-01 100.0% 52.5%
5036565 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.51 45.0 3.73e-01 100.0% 56.8%
5065621 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.50 44.0 3.52e-01 100.0% 49.8%