Back to structures

NC_021073.1__YP_007878084.1__VPDG_00112__00111

Bact-Vir

NC_021073.1__YP_007878084.1__VPDG_00112__00111

Identity

Accession:
NC_021073 ↗
Kingdom:
phage

Quality

72.2 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 30-105
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lmfA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.69 61.0 5.42e-01 98.7% 70.6%
2yinA03 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.68 60.0 5.07e-01 100.0% 78.9%
4dkcB00 1.20.1250.80 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interleukin-34 0.67 50.0 3.92e-01 78.9% 41.2%
3sl9B00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.67 53.0 4.19e-01 98.7% 40.6%
1j1jA02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.67 57.0 5.56e-01 97.4% 92.9%
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 56.0 5.14e-01 96.1% 75.0%
7dl9A01 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.65 47.0 3.51e-01 76.3% 34.5%
1zklA00 1.10.1300.10 Mainly Alpha › Orthogonal Bundle › Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b › 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain 0.65 57.0 3.81e-01 100.0% 32.8%
3anwB00 1.20.58.2050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 57.0 4.50e-01 100.0% 67.3%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.65 49.0 4.53e-01 100.0% 63.0%
6vqqA01 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.64 57.0 3.91e-01 100.0% 39.8%
5hayA02 1.25.40.440 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Nucleoporin, helical domain, central subdomain 0.64 47.0 4.69e-01 96.1% 75.9%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.63 46.0 4.40e-01 96.1% 66.7%
4id0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.63 51.0 4.57e-01 100.0% 62.5%
1oxjA02 1.25.40.170 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Smaug, PHAT domain 0.63 53.0 4.82e-01 97.4% 74.3%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 53.0 5.40e-01 94.7% 95.9%
2b7mA00 1.20.1280.170 Mainly Alpha › Up-down Bundle › Monooxygenase › Exocyst complex component Exo70 0.63 55.0 3.37e-01 100.0% 22.2%
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.63 54.0 4.81e-01 97.4% 75.5%
2i0mA02 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 0.62 54.0 4.92e-01 97.4% 93.1%
4c0eA01 1.25.40.790 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.62 54.0 3.71e-01 100.0% 29.7%
4hwhE00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.62 52.0 5.04e-01 100.0% 97.7%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.61 49.0 4.68e-01 88.2% 84.3%
8d7hD01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.61 47.0 3.62e-01 82.9% 93.6%
1ks9A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.60 51.0 4.39e-01 94.7% 100.0%
6wfqC01 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.60 42.0 3.48e-01 75.0% 69.0%
4gc0A02 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.59 44.0 3.17e-01 80.3% 31.4%
3frrA00 1.20.1260.60 Mainly Alpha › Up-down Bundle › Ferritin › Vacuolar protein sorting-associated protein Ist1 0.59 48.0 3.73e-01 100.0% 38.7%
1ic8A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.58 36.0 3.31e-01 88.2% 50.0%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.58 49.0 4.08e-01 92.1% 86.5%
3kp9A01 1.20.1440.130 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain 0.58 49.0 3.99e-01 100.0% 59.3%
1hw1A02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.58 43.0 3.45e-01 78.9% 65.6%
2d9dA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.58 50.0 4.79e-01 100.0% 88.8%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.57 50.0 4.40e-01 100.0% 70.2%
1wixA01 1.10.418.10 Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Calponin-like domain 0.56 47.0 3.72e-01 90.8% 92.8%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.56 45.0 3.95e-01 88.2% 88.0%
4aciA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 46.0 3.65e-01 96.1% 67.0%
6cxtB01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.55 50.0 4.38e-01 100.0% 75.9%
1z7lA00 1.10.10.2660 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ubiquitin-activating enzyme E1, SCCH domain 0.55 48.0 3.38e-01 100.0% 71.4%
1ax8A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.55 41.0 3.42e-01 78.9% 50.0%
1st6A04 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 48.0 4.21e-01 100.0% 74.4%
1qqtA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.54 43.0 3.59e-01 88.2% 59.4%
3vr4B04 1.10.1140.10 Mainly Alpha › Orthogonal Bundle › Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3 › Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3 0.54 47.0 3.71e-01 94.7% 60.3%
1wteB01 1.10.3250.10 Mainly Alpha › Orthogonal Bundle › type ii restriction endonuclease, domain 1 › type ii restriction endonuclease, domain 1 0.53 45.0 3.63e-01 93.4% 76.2%
3d2eA06 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.53 48.0 4.21e-01 100.0% 72.6%
8ctsB01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 37.0 3.61e-01 85.5% 69.0%
2oayA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.50 37.0 2.86e-01 80.3% 41.0%
1zc6A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 45.0 3.53e-01 98.7% 62.2%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3500346 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.70 52.0 4.40e-01 80.3% 55.4%
3939532 6155.1.1.7 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › CLPTM1 0.70 52.0 4.15e-01 80.3% 43.9%
3482686 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.69 59.0 5.66e-01 98.7% 97.8%
4984024 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.68 51.0 3.84e-01 80.3% 35.1%
5036274 6155.1.1.0 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.68 51.0 5.09e-01 81.6% 87.5%
4969464 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.68 59.0 5.62e-01 100.0% 92.2%
4934758 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.67 50.0 3.83e-01 80.3% 36.1%
5071598 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.67 55.0 4.53e-01 93.4% 60.7%
4943814 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 0.67 50.0 3.74e-01 80.3% 34.7%
5015634 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 0.67 52.0 3.89e-01 84.2% 73.7%
4992275 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.65 49.0 3.77e-01 80.3% 37.1%
3906344 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.65 50.0 4.80e-01 84.2% 80.0%
3543376 643.1.1.2 alpha arrays › Hypothetical protein MTH393 › Hypothetical protein MTH393 › Hypothetical protein MTH393 › PigN 0.65 56.0 4.64e-01 100.0% 73.8%
4946108 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 0.65 48.0 3.62e-01 80.3% 37.3%
3759592 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 0.65 50.0 3.55e-01 82.9% 60.0%
3561875 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.64 54.0 4.12e-01 97.4% 51.8%
3590073 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 0.64 45.0 4.43e-01 75.0% 76.5%
3168103 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.64 55.0 5.14e-01 97.4% 83.2%
3554294 603.2.1.1 alpha bundles › STAT-like › STAT › STAT › STAT_alpha 0.64 56.0 4.19e-01 100.0% 82.0%
4963715 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.64 46.0 3.45e-01 76.3% 34.7%
4182984 6155.1.1.0 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.63 54.0 4.89e-01 100.0% 80.0%
3270478 6155.1.1.4 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MPC 0.63 53.0 4.78e-01 93.4% 76.2%
4023149 109.4.1.140 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › NatB_MDM20 0.63 51.0 3.60e-01 93.4% 34.3%
3913307 192.4.1.0 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.63 53.0 5.11e-01 98.7% 91.1%
3546057 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.62 50.0 3.55e-01 86.8% 60.0%
2756447 5069.1.1.5 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cyt_bd_oxida_II 0.62 54.0 4.13e-01 98.7% 46.0%
3924660 604.1.1.140 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF27005 0.62 54.0 5.27e-01 100.0% 98.8%
3828970 604.3.1.1 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.62 54.0 5.03e-01 98.7% 88.4%
3979214 5050.1.1.22 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1_like 0.61 46.0 3.50e-01 80.3% 73.5%
3189488 6155.1.1.0 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.61 52.0 4.69e-01 97.4% 75.5%
4994581 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.61 48.0 3.58e-01 84.2% 74.7%
3489528 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 49.0 3.99e-01 98.7% 59.4%
3872783 604.3.1.1 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.58 51.0 4.66e-01 98.7% 82.0%
5075806 4995.1.1.1 alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 0.58 47.0 4.64e-01 90.8% 90.0%
4989411 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 0.58 41.0 3.06e-01 76.3% 32.1%
4946914 6155.1.1.0 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.58 48.0 4.02e-01 97.4% 64.8%
3220780 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.57 40.0 2.97e-01 76.3% 29.6%
2396196 601.1.2.1 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Vinculin 0.54 45.0 3.87e-01 97.4% 67.4%
3662427 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.53 47.0 4.04e-01 100.0% 67.5%
4142527 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.53 48.0 4.15e-01 100.0% 67.0%
4983661 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.52 45.0 4.01e-01 94.7% 95.2%
4181278 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.51 46.0 4.64e-01 98.7% 100.0%
4360723 632.7.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.50 46.0 4.33e-01 100.0% 85.6%
4679869 632.15.1.4 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › HSP70 0.50 46.0 4.43e-01 100.0% 90.6%