Back to structures

BML_08182015_1_5m_scaffold_5_prodigal-single.1__X__X__00001

Bact-Vir

BML_08182015_1_5m_scaffold_5_prodigal-single.1__X__X__00001

Identity

Kingdom:
phage

Quality

91.8 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 6-82
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.84 74.0 6.70e-01 93.5% 77.0%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.82 56.0 5.22e-01 70.1% 62.0%
4yvoA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.81 61.0 5.23e-01 92.2% 51.3%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.81 51.0 6.20e-01 71.4% 100.0%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.80 61.0 5.61e-01 93.5% 63.0%
2vsyA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.80 52.0 4.15e-01 90.9% 35.9%
3w7tA03 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.79 70.0 4.25e-01 96.1% 48.1%
3t9jA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 68.0 5.50e-01 93.5% 97.2%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 71.0 5.79e-01 98.7% 96.4%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.79 63.0 5.23e-01 93.5% 50.4%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 71.0 5.67e-01 98.7% 96.6%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 68.0 5.45e-01 94.8% 94.6%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.78 50.0 5.88e-01 75.3% 96.2%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 70.0 5.55e-01 98.7% 89.5%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 70.0 5.52e-01 98.7% 98.0%
7e9uA01 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.76 67.0 4.08e-01 96.1% 41.8%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 67.0 5.21e-01 100.0% 91.9%
1umnG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 69.0 5.34e-01 100.0% 89.1%
2cqsA04 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.75 68.0 4.27e-01 100.0% 45.5%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 66.0 5.09e-01 100.0% 91.4%
2oocB00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.75 53.0 4.81e-01 93.5% 55.2%
2c2uA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.74 65.0 4.99e-01 98.7% 97.2%
3rkvA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.74 60.0 4.85e-01 88.3% 50.3%
4nq0A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 65.0 4.53e-01 100.0% 31.5%
3oxfA05 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 58.0 5.93e-01 94.8% 89.3%
2xgsB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 48.0 4.91e-01 92.2% 71.2%
5l0wB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 58.0 4.78e-01 88.3% 48.6%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.72 51.0 4.23e-01 74.0% 61.5%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 62.0 4.91e-01 97.4% 84.0%
3unoE00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 63.0 4.88e-01 97.4% 79.6%
2gz6A00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.71 64.0 4.11e-01 100.0% 25.5%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.71 61.0 5.57e-01 98.7% 72.8%
4rm7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.70 60.0 5.06e-01 100.0% 69.1%
3qwwA03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 60.0 4.46e-01 97.4% 54.5%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 56.0 5.45e-01 96.1% 82.4%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 57.0 4.29e-01 92.2% 64.5%
2ix5A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.67 58.0 4.66e-01 98.7% 64.5%
2jifA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.67 56.0 4.63e-01 98.7% 59.7%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.67 44.0 4.76e-01 70.1% 82.8%
2katA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.66 60.0 5.22e-01 100.0% 81.7%
8hk0B03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.65 57.0 4.68e-01 97.4% 71.0%
3ceqA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 57.0 3.99e-01 100.0% 41.2%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 55.0 4.76e-01 94.8% 73.7%
5uh5D02 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.63 46.0 3.82e-01 76.6% 81.2%
1ho8A02 1.25.40.150 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › V-type ATPase, subunit H, C-terminal domain 0.61 50.0 4.50e-01 92.2% 67.0%
2cazE00 1.20.1440.200 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Vps28 N-terminal domain 0.60 51.0 4.70e-01 97.4% 98.0%
3pasA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 53.0 4.01e-01 100.0% 63.7%
2fo7A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.60 53.0 4.38e-01 97.4% 61.8%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.59 49.0 4.55e-01 97.4% 96.1%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.59 50.0 3.93e-01 100.0% 76.0%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.58 49.0 4.51e-01 97.4% 72.6%
4gywA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.58 47.0 4.33e-01 92.2% 81.0%
4qndA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.57 49.0 4.59e-01 100.0% 89.7%
3l1nA02 1.20.1280.140 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.54 44.0 4.27e-01 93.5% 95.4%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.53 44.0 3.69e-01 94.8% 94.2%
3lwjA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 43.0 3.41e-01 98.7% 95.3%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5035734 159.1.1.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG 0.85 56.0 4.67e-01 70.1% 41.6%
5053401 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.85 72.0 7.49e-01 96.1% 100.0%
3519253 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 66.0 5.72e-01 92.2% 58.3%
5007109 601.3.1.1 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › Hpt 0.81 69.0 5.77e-01 97.4% 55.4%
4933737 3567.1.1.192 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › EMC3_TMCO1 0.80 55.0 5.07e-01 70.1% 60.0%
3316583 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.80 65.0 5.25e-01 88.3% 49.0%
4046400 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.80 72.0 5.66e-01 98.7% 93.5%
3373543 1075.4.1.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.79 54.0 3.08e-01 70.1% 31.7%
4947470 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.79 70.0 5.77e-01 97.4% 97.8%
4992790 601.2.1.0 alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes 0.79 67.0 6.26e-01 93.5% 74.7%
165192 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.79 71.0 5.78e-01 98.7% 96.4%
3387197 601.3.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.79 72.0 5.97e-01 98.7% 59.2%
5046472 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.79 70.0 6.55e-01 98.7% 93.7%
5045256 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.79 72.0 6.64e-01 98.7% 94.7%
137840 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.79 68.0 5.45e-01 94.8% 94.6%
367569 150.1.1.7 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › DUF892 0.78 70.0 5.68e-01 98.7% 87.5%
3992995 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.78 68.0 6.14e-01 96.1% 91.3%
4084484 6155.1.1.17 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › LAB_N 0.78 67.0 6.79e-01 93.5% 100.0%
3596405 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.77 67.0 5.66e-01 97.4% 58.4%
307814 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.76 70.0 5.43e-01 98.7% 93.0%
3987447 150.1.2.26 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Heme oxygenase/Ribonucleotide reductase › Ferritin 0.76 68.0 5.20e-01 97.4% 83.5%
4025173 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 62.0 4.26e-01 88.3% 29.4%
2503462 601.33.1.1 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.76 66.0 6.19e-01 96.1% 78.7%
55853 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.76 68.0 5.47e-01 98.7% 97.3%
3185412 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 64.0 5.76e-01 96.1% 67.6%
5055868 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.76 57.0 5.81e-01 77.9% 89.3%
4011740 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.75 66.0 6.09e-01 98.7% 88.0%
4928205 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.74 66.0 5.22e-01 98.7% 90.0%
180062 109.4.1.2437 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_7, RapH_N 0.74 65.0 4.08e-01 93.5% 26.6%
4262515 610.4.1.1 alpha arrays › ERP29 C domain-like › YqeY domain › YqeY domain › YqeY 0.74 55.0 5.02e-01 77.9% 70.0%
3448742 109.7.1.4 alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E › SNAP 0.74 62.0 6.49e-01 92.2% 100.0%
3178110 610.4.1.1 alpha arrays › ERP29 C domain-like › YqeY domain › YqeY domain › YqeY 0.74 55.0 4.23e-01 77.9% 42.4%
4997380 3543.1.1.0 alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel 0.74 63.0 4.88e-01 97.4% 47.8%
3258588 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.73 67.0 5.42e-01 100.0% 100.0%
None 0.73 59.0 4.67e-01 88.3% 46.9%
2492494 601.33.1.1 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.73 66.0 6.17e-01 100.0% 83.0%
3725615 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.73 65.0 6.47e-01 98.7% 96.2%
4011835 109.4.1.1320 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_7, TPR_10, TPR_12 0.72 60.0 5.52e-01 97.4% 70.0%
3408953 109.4.1.403 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Foie-gras_1 0.70 62.0 5.14e-01 100.0% 77.1%
5007869 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.70 60.0 5.62e-01 100.0% 92.0%
3784566 604.1.1.191 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29057 0.69 55.0 5.11e-01 87.0% 91.0%
4974234 604.12.1.141 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › 8xMP 0.69 60.0 5.84e-01 98.7% 97.6%
3687171 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.69 61.0 5.12e-01 94.8% 91.2%
4032384 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.66 56.0 5.62e-01 97.4% 100.0%
4963078 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.66 56.0 5.28e-01 98.7% 85.3%
4032823 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.65 55.0 5.44e-01 96.1% 98.8%
5027625 3457.1.1.1 alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.64 50.0 3.81e-01 83.1% 88.0%
3242490 109.21.1.1 alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleopor_Nup85 0.64 56.0 3.37e-01 100.0% 23.3%
3786832 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 54.0 3.72e-01 94.8% 61.2%
3630026 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 55.0 3.41e-01 100.0% 26.0%
5029465 3457.1.1.1 alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.59 47.0 3.74e-01 88.3% 90.9%