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NC_025440.1__YP_010843779.1__PI27_gp212__00212

Bact-Vir

NC_025440.1__YP_010843779.1__PI27_gp212__00212

Identity

Accession:
NC_025440 ↗
Kingdom:
phage

Quality

64.0 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 medium residues 152-202
PDB
Domain cluster: representative
D2 medium residues 243-304
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.83 67.0 4.98e-01 87.1% 92.6%
3n2oA03 1.20.58.930 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 53.0 4.58e-01 71.0% 50.0%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.76 51.0 4.76e-01 71.0% 67.9%
2etdA00 1.20.1440.20 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › LemA-like domain 0.74 66.0 5.04e-01 100.0% 56.7%
7xcnM01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.72 49.0 4.55e-01 71.0% 94.9%
2au5A00 1.20.120.590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › EF2947-like 0.71 56.0 4.40e-01 85.5% 79.8%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.70 48.0 4.42e-01 72.6% 60.2%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.70 52.0 5.31e-01 79.0% 85.0%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.70 46.0 4.21e-01 71.0% 49.4%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.70 47.0 4.39e-01 71.0% 72.2%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.70 47.0 3.86e-01 71.0% 73.5%
4kjmB01 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 0.70 60.0 6.02e-01 96.8% 98.4%
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 59.0 4.32e-01 95.2% 49.4%
1nafA02 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 45.0 4.10e-01 71.0% 51.8%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 57.0 4.70e-01 100.0% 88.1%
6p73A02 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 54.0 4.32e-01 100.0% 58.0%
2qgnA02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.65 46.0 4.25e-01 75.8% 79.3%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.64 52.0 4.51e-01 100.0% 71.8%
3pvuA02 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.63 52.0 4.87e-01 95.2% 72.5%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.63 52.0 4.93e-01 100.0% 88.9%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.63 49.0 4.97e-01 85.5% 96.8%
2ld7B00 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.63 48.0 4.54e-01 83.9% 76.0%
3c8tA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 51.0 4.50e-01 95.2% 82.5%
2f2gA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.62 51.0 3.62e-01 96.8% 67.0%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.61 50.0 4.97e-01 98.4% 95.5%
2gf4A00 1.20.1270.110 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Uncharacterised protein family UPF0058 0.61 52.0 4.72e-01 100.0% 71.6%
1zp2A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.61 45.0 3.69e-01 79.0% 55.4%
2kkmA01 1.20.1440.170 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Translation machinery-associated protein 16-like 0.60 40.0 3.32e-01 71.0% 60.8%
2qm8A03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.60 41.0 4.07e-01 74.2% 67.7%
6q9jB02 1.20.1440.230 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain 0.59 49.0 4.43e-01 95.2% 77.3%
4cc9B00 1.20.5.4730 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 46.0 4.06e-01 88.7% 61.2%
1kblA05 1.20.80.30 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › 0.58 48.0 4.36e-01 95.2% 82.0%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.58 49.0 3.98e-01 100.0% 68.0%
6y4rA01 1.25.40.590 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Type IV / VI secretion system, DotU 0.57 42.0 3.26e-01 82.3% 72.4%
1bcrA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 45.0 3.04e-01 88.7% 24.0%
1hw1A02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.57 49.0 3.74e-01 100.0% 41.1%
5xs2B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.56 49.0 3.91e-01 100.0% 70.5%
1aisB02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.56 44.0 3.89e-01 85.5% 74.5%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.55 42.0 3.73e-01 90.3% 76.7%
4i5lB01 1.10.238.230 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.55 40.0 3.52e-01 80.6% 86.0%
2ddhA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.55 37.0 3.16e-01 72.6% 43.2%
2w96A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.54 45.0 3.88e-01 100.0% 75.2%
1j8yF01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.54 42.0 3.88e-01 88.7% 81.4%
1s8nA02 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 0.54 44.0 4.56e-01 100.0% 100.0%
6z4xA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.54 44.0 3.39e-01 95.2% 52.3%
3kp9A01 1.20.1440.130 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain 0.54 47.0 3.50e-01 100.0% 46.9%
3s64A00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.53 37.0 3.47e-01 75.8% 88.9%
2ffjA01 1.10.8.380 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 0.53 42.0 4.45e-01 88.7% 100.0%
3hwrA02 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 0.52 43.0 3.52e-01 100.0% 58.1%
5l3wA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.52 42.0 3.83e-01 90.3% 69.0%
2r18A02 1.10.8.880 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Birnavirus VP3 protein, domain 2 0.51 39.0 4.01e-01 91.9% 88.1%
7cjsB01 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.50 44.0 3.05e-01 100.0% 58.2%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3706056 604.22.1.0 alpha bundles › Spectrin repeat-like › tubulin binding cofactor C N-terminal domain › tubulin binding cofactor C N-terminal domain 0.81 55.0 4.91e-01 71.0% 61.2%
5012928 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 0.78 68.0 5.72e-01 95.2% 94.0%
5061845 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.75 51.0 4.32e-01 71.0% 68.0%
4998720 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.74 50.0 3.27e-01 71.0% 18.9%
5061885 298.2.1.0 a+b two layers › FwdE/GAPDH domain-like › FwdE-like › FwdE-like 0.73 60.0 4.08e-01 88.7% 72.9%
5061334 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.71 61.0 5.71e-01 100.0% 80.0%
4927172 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.71 60.0 5.13e-01 93.5% 70.0%
4938672 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.71 61.0 5.93e-01 96.8% 94.3%
5061756 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.71 61.0 5.56e-01 100.0% 75.3%
4981747 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.70 59.0 5.89e-01 100.0% 95.4%
3781388 605.4.1.0 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.69 57.0 5.44e-01 93.5% 90.7%
3386973 5086.1.1.84 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.69 48.0 4.23e-01 71.0% 52.2%
5046473 601.3.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.69 57.0 5.17e-01 100.0% 66.7%
4525341 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.69 47.0 4.53e-01 71.0% 67.1%
3971758 5086.1.1.84 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.69 47.0 4.22e-01 71.0% 55.3%
4258322 5086.1.1.189 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_CzcB 0.69 47.0 4.53e-01 71.0% 62.9%
5058630 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.68 56.0 5.61e-01 96.8% 95.4%
4076285 3755.1.1.12 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related › CheZ 0.68 46.0 3.56e-01 71.0% 93.6%
4010479 325.1.7.48 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › PF25885 0.68 46.0 3.66e-01 71.0% 36.2%
5076363 4995.1.1.1 alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 0.67 44.0 3.98e-01 72.6% 49.4%
3933315 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.67 47.0 4.04e-01 74.2% 91.0%
3814902 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.67 52.0 4.94e-01 85.5% 77.3%
3469086 3755.4.1.17 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Rx_N 0.67 57.0 4.48e-01 100.0% 69.3%
3896767 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.66 56.0 5.34e-01 100.0% 85.3%
5059485 7076.1.1.0 0.66 51.0 5.30e-01 91.9% 98.2%
5061725 632.23.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I 0.66 55.0 5.21e-01 100.0% 80.0%
3437288 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.66 53.0 4.99e-01 87.1% 82.7%
3813335 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.66 50.0 4.47e-01 83.9% 65.6%
3340051 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.65 50.0 4.66e-01 83.9% 71.2%
5060248 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 0.65 54.0 5.31e-01 100.0% 97.1%
4041623 632.2.1.3 alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › FIVAR 0.65 55.0 5.22e-01 100.0% 89.3%
3286065 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.65 53.0 5.23e-01 100.0% 94.3%
3974625 5086.1.1.84 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.64 43.0 4.22e-01 71.0% 92.9%
3186807 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.64 51.0 4.44e-01 87.1% 65.3%
3737108 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.63 49.0 4.83e-01 83.9% 87.7%
143586 509.1.1.1 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH 0.63 48.0 4.54e-01 83.9% 76.0%
3810015 509.1.1.0 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.63 47.0 4.51e-01 83.9% 73.3%
4994276 186.1.1.4 alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.62 47.0 4.24e-01 83.9% 81.1%
3192660 509.1.1.9 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH_ZNF598 0.62 47.0 4.13e-01 82.3% 62.1%
4011370 509.1.1.0 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.62 47.0 4.11e-01 82.3% 62.1%
3450135 632.2.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.60 48.0 4.69e-01 91.9% 80.0%
3821280 509.1.1.0 alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.59 46.0 4.51e-01 91.9% 88.6%
3578718 101.1.6.0 alpha arrays › HTH › HTH › TrpR 0.57 46.0 4.12e-01 95.2% 83.2%
4610458 103.1.1.6 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C 0.54 37.0 3.98e-01 82.3% 88.0%
3272839 3352.1.1.16 alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › ALG3 0.54 43.0 2.81e-01 95.2% 40.3%
4937154 102.3.1.0 alpha arrays › HhH/H2TH › eIF2alpha middle domain › eIF2alpha middle domain 0.53 45.0 4.11e-01 100.0% 94.1%
147354 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.53 37.0 3.47e-01 75.8% 88.9%