Back to structures

5H_04062016_scaffold_1_prodigal-single.1__X__X__00197

Bact-Vir

5H_04062016_scaffold_1_prodigal-single.1__X__X__00197

Identity

Kingdom:
phage

Quality

95.7 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 3-54
PDB
Domain cluster: representative
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ktmA00 1.10.790.10 Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain 0.80 71.0 6.52e-01 100.0% 83.8%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.78 61.0 5.41e-01 94.2% 60.0%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.76 52.0 4.43e-01 75.0% 45.7%
1a8rA01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.76 65.0 5.55e-01 98.1% 62.4%
3umbA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.75 63.0 5.48e-01 94.2% 62.0%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 52.0 4.50e-01 80.8% 50.6%
1is8A01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.72 60.0 5.81e-01 100.0% 85.0%
4uqfG01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.71 56.0 5.62e-01 96.2% 90.4%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.70 53.0 5.05e-01 88.5% 68.8%
1ij5A01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 53.0 4.64e-01 82.7% 100.0%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.69 50.0 3.53e-01 76.9% 67.3%
1u7lA02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.69 50.0 3.45e-01 78.8% 79.2%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.68 52.0 3.95e-01 80.8% 38.2%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.67 54.0 4.97e-01 86.5% 89.2%
1t72A02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.67 54.0 4.31e-01 88.5% 45.9%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.66 54.0 4.16e-01 90.4% 97.4%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 50.0 3.93e-01 80.8% 42.2%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 53.0 4.46e-01 88.5% 80.5%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 51.0 4.13e-01 96.2% 46.7%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 49.0 4.66e-01 80.8% 71.4%
1gaxA05 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.65 49.0 4.37e-01 80.8% 57.5%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 49.0 4.71e-01 80.8% 70.0%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 48.0 4.31e-01 80.8% 57.7%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.64 55.0 4.22e-01 96.2% 41.9%
6qv3A05 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 55.0 4.58e-01 98.1% 58.1%
3hhcC00 1.20.1250.60 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interferon lambda 0.63 46.0 3.33e-01 78.8% 50.3%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 47.0 4.13e-01 78.8% 55.4%
5jrcA00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 47.0 3.18e-01 78.8% 23.1%
5svlA01 1.10.287.940 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › atp-gated p2x4 ion channel 0.62 54.0 5.00e-01 100.0% 83.8%
2oyoA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.62 49.0 3.73e-01 88.5% 36.0%
3euwA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.62 52.0 3.46e-01 94.2% 81.7%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.62 46.0 3.85e-01 80.8% 50.0%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.62 47.0 4.05e-01 80.8% 51.9%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 47.0 4.58e-01 96.2% 74.1%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.61 44.0 4.13e-01 76.9% 62.5%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.61 49.0 3.87e-01 96.2% 44.1%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 46.0 4.11e-01 88.5% 57.5%
4rg8A04 1.10.287.1240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 41.0 3.89e-01 71.2% 100.0%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 52.0 3.93e-01 94.2% 72.9%
1s5jA04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.60 47.0 4.47e-01 96.2% 72.1%
2db7A01 6.10.250.980 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 47.0 4.76e-01 98.1% 84.9%
3buxB01 1.20.930.20 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Adaptor protein Cbl, N-terminal domain 0.59 52.0 3.92e-01 100.0% 63.6%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.58 49.0 5.00e-01 98.1% 92.2%
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 0.58 50.0 3.34e-01 96.2% 25.4%
1e6cA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 48.0 3.43e-01 98.1% 38.8%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.58 51.0 4.66e-01 96.2% 77.3%
2o3bB00 3.40.1460.10 Alpha Beta › 3-Layer(aba) Sandwich › Nuia › Nuclease A inhibitor-like 0.57 48.0 3.49e-01 90.4% 43.7%
5fhiA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 49.0 3.54e-01 96.2% 35.3%
2e9xB02 1.20.58.1020 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 47.0 3.60e-01 88.5% 45.9%
2oznB01 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.57 52.0 4.44e-01 100.0% 76.2%
4ielA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 46.0 3.59e-01 96.2% 41.4%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.52 47.0 3.74e-01 100.0% 98.0%
5b7cA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.51 44.0 3.44e-01 96.2% 45.0%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5055207 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.87 74.0 6.18e-01 100.0% 56.5%
3172246 5063.1.1.0 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.83 69.0 6.82e-01 100.0% 87.3%
3947226 283.2.1.10 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › PF29514 0.79 64.0 4.77e-01 100.0% 36.2%
4045132 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.78 54.0 4.17e-01 96.2% 34.5%
3621479 6026.1.1.1 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.77 62.0 5.38e-01 98.1% 56.5%
4427437 589.1.1.0 alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain 0.76 64.0 4.81e-01 100.0% 38.5%
3270778 108.1.1.96 alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7 0.75 61.0 4.99e-01 100.0% 48.0%
3827397 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.75 66.0 5.12e-01 100.0% 52.2%
3909150 5063.1.1.15 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › OCIA 0.73 63.0 5.65e-01 100.0% 72.0%
3252296 601.55.1.1 alpha bundles › Four-helical up-and-down bundle › anti-complement domain of BBK32 › anti-complement domain of BBK32 › NCA2 0.71 61.0 5.09e-01 100.0% 94.7%
3810882 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.71 61.0 3.85e-01 100.0% 35.6%
3386554 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 0.70 50.0 4.40e-01 80.8% 52.0%
2507423 632.2.1.3 alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › FIVAR 0.69 49.0 4.25e-01 80.8% 50.0%
4075464 603.1.1.129 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › FliP 0.69 60.0 3.99e-01 100.0% 24.7%
3285244 5063.1.1.19 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › DUF2277 0.68 53.0 5.59e-01 86.5% 100.0%
3457711 3846.1.1.0 alpha bundles › IcmR › IcmR › IcmR 0.68 59.0 5.81e-01 100.0% 92.7%
3209229 3877.1.1.1 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.68 54.0 3.56e-01 100.0% 19.7%
3491670 614.1.1.0 alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain 0.68 53.0 5.24e-01 96.2% 81.8%
3470751 3755.3.1.297 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF9 0.68 59.0 4.19e-01 100.0% 80.0%
3477880 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.68 50.0 3.10e-01 80.8% 14.1%
3495293 1203.1.2.0 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.67 51.0 3.74e-01 82.7% 88.6%
4034201 192.7.1.1 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FemAB 0.67 50.0 4.74e-01 78.8% 81.7%
4029425 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.66 46.0 3.94e-01 78.8% 45.9%
3971539 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 0.65 52.0 4.51e-01 96.2% 58.7%
3282465 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.64 57.0 4.71e-01 100.0% 60.0%
3415522 4082.1.1.1 alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain › Hairy_orange 0.64 49.0 4.58e-01 82.7% 67.7%
3855880 622.4.1.19 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › CD20 0.64 49.0 3.82e-01 80.8% 42.9%
3271303 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.64 54.0 3.43e-01 94.2% 67.5%
4211233 4120.1.1.60 few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › GlutR_dimer 0.63 55.0 4.83e-01 100.0% 65.0%
3646397 3877.1.1.1 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.63 52.0 3.40e-01 98.1% 20.8%
3311177 605.4.1.0 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.63 55.0 4.99e-01 100.0% 94.3%
3164721 1078.1.1.0 extended segments › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit › Bd-type quinol oxidase transmembrane helix subunit 0.62 53.0 4.52e-01 100.0% 80.0%
3762595 604.7.1.13 alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › HR1 0.62 46.0 3.81e-01 80.8% 45.6%
3437287 5086.1.1.199 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › PF31016 0.62 50.0 3.45e-01 88.5% 42.3%
3685082 4120.1.1.53 few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › AA_permease_2 0.61 51.0 3.51e-01 100.0% 25.9%
3456370 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.61 49.0 3.48e-01 88.5% 73.5%
3503635 605.1.1.133 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › OST3_OST6 0.60 48.0 3.64e-01 88.5% 37.5%
3213527 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.60 53.0 3.32e-01 100.0% 73.7%
4940281 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.60 50.0 4.66e-01 96.2% 72.3%
4971099 4044.1.1.0 alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.59 50.0 4.22e-01 96.2% 63.3%
3942662 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.58 48.0 3.89e-01 96.2% 49.5%
3184698 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 0.57 51.0 4.17e-01 96.2% 64.4%
3660913 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.57 47.0 4.09e-01 100.0% 58.9%
3289802 284.1.1.0 a+b two layers › FKBP-like › FKBP-like › FKBP-like 0.56 46.0 2.67e-01 100.0% 52.5%
3707613 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.56 47.0 3.04e-01 96.2% 20.0%
3619865 10.28.1.1 beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1 › jr-ZPR1 0.52 44.0 3.30e-01 100.0% 51.7%