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NC_055743.1__YP_010095075.1__KNT87_gp128__00128

Bact-Vir

NC_055743.1__YP_010095075.1__KNT87_gp128__00128

Identity

Accession:
NC_055743 ↗
Kingdom:
phage

Quality

77.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Risoevirus› Erwinia_phage_Cronus

TaxID: 2163633

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 4-82
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sziA02 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.76 60.0 4.99e-01 84.8% 79.6%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.75 59.0 5.24e-01 84.8% 83.2%
1fftC00 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.74 59.0 4.43e-01 84.8% 63.2%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.73 54.0 4.76e-01 78.5% 69.8%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.72 61.0 5.31e-01 92.4% 94.2%
1m56C02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.72 59.0 4.39e-01 88.6% 67.3%
4al0A00 1.20.120.550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain 0.72 53.0 4.37e-01 79.7% 47.3%
7kfuC02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.70 55.0 3.85e-01 100.0% 27.9%
1a7vA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.70 54.0 4.68e-01 83.5% 88.0%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.70 51.0 4.68e-01 78.5% 91.5%
2l7nA00 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.69 54.0 4.26e-01 84.8% 61.3%
4o6yB00 1.20.120.1770 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 54.0 3.98e-01 84.8% 50.2%
1xzpA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.69 56.0 4.40e-01 88.6% 67.5%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.69 55.0 4.49e-01 86.1% 85.5%
3t9oB00 1.20.120.30 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain 0.68 53.0 4.67e-01 84.8% 86.7%
3kdrA01 1.20.1270.210 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.68 48.0 4.37e-01 73.4% 62.3%
4od4A02 1.20.120.1780 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase 0.67 53.0 4.62e-01 84.8% 92.4%
1a5tA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.66 59.0 5.11e-01 96.2% 90.5%
3ieeA02 1.20.58.820 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Uncharacterised protein PF12889, C-terminal DUF3829 0.66 50.0 4.63e-01 82.3% 88.3%
2pfdA03 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.65 48.0 3.54e-01 77.2% 84.7%
1v9vA01 1.20.1480.20 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › MAST3 pre-PK domain-like 0.65 48.0 4.57e-01 78.5% 82.1%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.64 51.0 5.24e-01 100.0% 89.5%
3bgeA01 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.64 52.0 4.94e-01 91.1% 74.0%
2au5A00 1.20.120.590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › EF2947-like 0.64 53.0 4.49e-01 89.9% 87.6%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.64 47.0 4.67e-01 78.5% 84.1%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.63 54.0 4.60e-01 94.9% 78.5%
1rq0A01 6.10.140.160 Special › Helix non-globular › Helix Hairpins › 0.63 43.0 4.32e-01 72.2% 100.0%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.63 57.0 5.36e-01 100.0% 83.2%
7q37A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.62 55.0 4.00e-01 100.0% 94.4%
4rm7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.61 56.0 4.59e-01 100.0% 61.2%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.61 48.0 4.18e-01 86.1% 91.9%
6ks6G02 3.30.260.10 Alpha Beta › 2-Layer Sandwich › GROEL; domain 2 › TCP-1-like chaperonin intermediate domain 0.61 43.0 3.96e-01 73.4% 96.2%
5jnmA02 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 44.0 3.42e-01 77.2% 96.0%
7k18A01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.60 51.0 4.35e-01 96.2% 67.9%
8hk0B03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 51.0 4.27e-01 97.5% 59.4%
1zylA03 1.20.1270.170 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 48.0 4.42e-01 97.5% 89.3%
1i6pA00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.55 38.0 2.93e-01 74.7% 42.5%
2kq9A00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.54 45.0 4.05e-01 91.1% 82.1%
3m1tA00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.54 42.0 3.05e-01 89.9% 47.6%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.53 42.0 4.00e-01 93.7% 72.6%
3h37A03 1.20.58.1960 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 44.0 3.83e-01 97.5% 67.2%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.51 37.0 3.50e-01 79.7% 81.6%
3rm5B02 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.51 44.0 3.26e-01 100.0% 92.0%
5nohA00 1.20.120.1350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain 0.51 43.0 4.03e-01 98.7% 91.3%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3927442 601.1.1.95 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › F_actin_bind 0.81 66.0 5.44e-01 86.1% 94.1%
3273757 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.80 64.0 5.59e-01 84.8% 79.8%
3401856 601.34.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › F-actin binding domain of Abl › F-actin binding domain of Abl › F_actin_bind 0.79 64.0 5.65e-01 84.8% 87.3%
4664275 5039.1.1.1 ↗ alpha bundles › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › COX3 0.76 60.0 4.40e-01 84.8% 55.6%
3706915 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.75 57.0 5.98e-01 100.0% 91.4%
5049533 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.74 64.0 5.58e-01 92.4% 65.2%
4220561 601.1.1.5 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › CAS_C 0.74 61.0 5.13e-01 88.6% 91.5%
4350232 141.1.1.3 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.73 61.0 4.16e-01 93.7% 89.8%
4991684 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.73 58.0 3.96e-01 86.1% 39.3%
4105857 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.72 59.0 4.61e-01 88.6% 70.3%
3969198 601.18.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 0.72 56.0 5.29e-01 84.8% 96.8%
4933045 601.7.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › PaREP1 0.71 51.0 5.06e-01 75.9% 95.3%
3323850 601.1.1.58 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › FPP 0.71 57.0 5.91e-01 100.0% 92.0%
3568926 7515.1.1.6 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.71 56.0 3.55e-01 86.1% 20.0%
4886336 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.71 57.0 4.43e-01 87.3% 68.8%
3178615 5001.1.1.85 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Fung_rhodopsin 0.70 62.0 4.30e-01 100.0% 59.6%
4108310 601.25.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.69 56.0 4.37e-01 88.6% 69.4%
4942062 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.66 54.0 5.35e-01 100.0% 84.7%
3240078 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.66 57.0 3.84e-01 100.0% 82.5%
3970945 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.66 53.0 4.70e-01 88.6% 91.3%
3714237 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.65 58.0 5.33e-01 100.0% 91.4%
5001811 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.64 58.0 5.57e-01 100.0% 88.9%
3389416 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.64 55.0 5.14e-01 96.2% 85.0%
3440913 4006.1.1.0 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain 0.64 58.0 4.85e-01 100.0% 79.3%
3216584 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.64 57.0 5.39e-01 100.0% 82.1%
4982662 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.63 56.0 4.57e-01 100.0% 54.3%
3954901 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.62 53.0 4.66e-01 94.9% 90.8%
3610580 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.62 55.0 4.55e-01 98.7% 80.0%
3471731 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 55.0 3.69e-01 100.0% 73.1%
3775354 181.1.1.6 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › PCM1_C 0.62 50.0 4.50e-01 91.1% 82.6%
54721 601.26.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › YppE-like › YppE-like 0.61 48.0 4.18e-01 86.1% 91.9%
3933315 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.61 43.0 3.98e-01 73.4% 90.0%
3393952 7515.1.1.6 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.61 52.0 3.40e-01 97.5% 31.6%
5005724 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.60 42.0 3.06e-01 74.7% 29.4%
5012866 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.60 52.0 4.49e-01 94.9% 98.3%
4985462 192.2.1.89 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › DUF7121 0.59 42.0 3.04e-01 74.7% 29.2%
3289653 191.1.1.8 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_33 0.59 52.0 4.44e-01 98.7% 86.2%
3279490 191.1.1.10 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_6 0.59 52.0 4.44e-01 98.7% 95.4%
3595102 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.58 51.0 5.02e-01 100.0% 90.6%
5050851 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.58 51.0 4.31e-01 97.5% 70.0%
3501219 181.1.1.0 ↗ alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins 0.58 46.0 4.31e-01 91.1% 93.3%
4929723 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.57 50.0 4.03e-01 98.7% 55.5%
5058148 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.57 43.0 4.10e-01 86.1% 91.0%
3696811 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.57 50.0 4.13e-01 100.0% 61.4%
5049791 601.7.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like 0.55 49.0 4.11e-01 100.0% 76.4%
3738679 376.1.3.60 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › PLU-1 0.54 43.0 4.31e-01 93.7% 85.0%
4095580 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.54 47.0 4.38e-01 92.4% 76.8%
3960206 191.1.1.27 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_25 0.52 43.0 3.86e-01 92.4% 98.3%
4945558 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.52 45.0 4.20e-01 96.2% 84.8%
5028077 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.52 43.0 3.98e-01 100.0% 80.9%