←Back to structures

NC_070885.1__YP_010661791.1__PP936_gp153__00153

Bact-Vir

NC_070885.1__YP_010661791.1__PP936_gp153__00153

Identity

Accession:
NC_070885 ↗
Kingdom:
phage

Quality

77.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Trinifflemingvirus› Rhizobium_phage_RHph_I1_9

TaxID: 2509729

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 10-61
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.93 63.0 6.89e-01 71.2% 90.9%
1wpbG01 1.10.287.680 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.89 65.0 6.42e-01 78.8% 74.1%
2fupA00 1.20.58.300 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › FlgN-like 0.88 75.0 5.47e-01 92.3% 52.0%
5dqqA01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.86 74.0 5.46e-01 94.2% 40.6%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.86 75.0 6.33e-01 94.2% 59.8%
3ehfB01 6.10.250.2870 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.86 74.0 5.79e-01 94.2% 50.0%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.85 71.0 6.81e-01 94.2% 79.7%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.84 73.0 6.82e-01 94.2% 81.0%
1hr5A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.84 66.0 6.82e-01 90.4% 91.7%
4fxdA04 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.82 75.0 5.24e-01 100.0% 86.3%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.82 70.0 6.12e-01 94.2% 67.5%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.81 60.0 5.77e-01 84.6% 70.7%
1rsoA01 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.80 64.0 6.52e-01 86.5% 96.1%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.79 48.0 4.89e-01 73.1% 64.0%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.79 66.0 5.18e-01 94.2% 48.2%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.79 62.0 5.86e-01 88.5% 93.8%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.77 67.0 5.99e-01 94.2% 69.0%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 65.0 5.33e-01 100.0% 88.1%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.72 55.0 4.94e-01 84.6% 61.8%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.72 60.0 5.73e-01 96.2% 92.1%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.71 57.0 5.40e-01 96.2% 81.5%
1ax8A00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.69 56.0 4.33e-01 96.2% 56.2%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 55.0 5.28e-01 94.2% 96.8%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 57.0 5.52e-01 98.1% 85.0%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 57.0 4.61e-01 100.0% 80.4%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 55.0 5.03e-01 96.2% 70.7%
4gzrC00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.67 53.0 5.06e-01 86.5% 75.4%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 54.0 4.96e-01 98.1% 76.7%
1c0pA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.67 48.0 3.21e-01 76.9% 33.7%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.66 52.0 4.20e-01 92.3% 44.7%
6n7pX01 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.66 54.0 3.44e-01 98.1% 29.1%
3ejnA03 1.20.120.840 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SusD-like, tetratrico peptide repeats domain 0.66 54.0 4.32e-01 100.0% 45.0%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.65 53.0 4.83e-01 98.1% 68.4%
6ofuA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.64 49.0 3.13e-01 82.7% 25.5%
5vjhB03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 41.0 2.73e-01 73.1% 16.0%
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.62 51.0 4.25e-01 92.3% 81.9%
2elcA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.60 43.0 3.97e-01 90.4% 59.7%
1tfeA02 1.10.286.20 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › 0.59 40.0 4.30e-01 71.2% 84.4%
1txuA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 50.0 4.11e-01 94.2% 61.7%
2znmD00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.54 44.0 3.08e-01 94.2% 71.2%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3287592 3443.1.1.0 ↗ alpha duplicates or obligate multimers › Get5 carboxyl domain › Get5 carboxyl domain › Get5 carboxyl domain 0.89 74.0 7.56e-01 88.5% 98.0%
5067349 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.88 69.0 5.98e-01 82.7% 61.3%
4943086 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.86 77.0 6.91e-01 98.1% 94.3%
1389183 6161.1.1.1 ↗ a+b two layers › Uncharacterized virus protein A-100 › Uncharacterized virus protein A-100 › Uncharacterized virus protein A-100 › DUF5517 0.86 73.0 6.09e-01 92.3% 59.3%
4941665 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 0.86 72.0 6.57e-01 92.3% 69.6%
4961508 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 0.86 73.0 6.44e-01 94.2% 65.3%
4054043 192.1.1.2 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › GreA_GreB_N 0.85 73.0 6.56e-01 94.2% 81.4%
3385993 192.14.1.0 ↗ alpha bundles › Long alpha-hairpin › Siah interacting protein N terminal domain-like › Siah interacting protein N terminal domain-like 0.85 73.0 7.23e-01 94.2% 89.1%
3608485 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.84 73.0 5.51e-01 94.2% 42.6%
4980470 6155.1.1.0 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.84 72.0 5.91e-01 96.2% 54.7%
5044551 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 0.84 70.0 6.52e-01 92.3% 73.8%
3494616 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.77 65.0 5.51e-01 94.2% 95.3%
3949413 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.76 61.0 4.55e-01 90.4% 34.8%
5040591 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.75 63.0 5.36e-01 98.1% 60.0%
3610628 650.1.1.1 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ 0.74 60.0 5.56e-01 94.2% 80.0%
4937556 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.74 58.0 5.60e-01 92.3% 75.0%
3395965 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.72 62.0 6.16e-01 96.2% 100.0%
3805896 650.1.1.1 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ 0.70 58.0 4.86e-01 96.2% 87.4%
3582958 864.1.1.2 ↗ a+b two layers › DLC › DLC › DLC › Tctex-1 0.66 46.0 3.57e-01 80.8% 31.7%