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MH576966.1__AXH67037.1__SEA_THYATIRA_38__00037

Bact-Vir

MH576966.1__AXH67037.1__SEA_THYATIRA_38__00037

Identity

Accession:
MH576966 ↗
Kingdom:
phage

Quality

86.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kratiovirus› Mycobacterium_phage_Thyatira

TaxID: 2283261

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 42-189
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wteA01 3.40.50.11700 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.72 34.0 3.56e-01 85.8% 47.1%
3if5A02 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.70 41.0 5.13e-01 90.5% 95.5%
1tq8A00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.70 35.0 3.80e-01 75.7% 55.9%
1ii7B02 3.30.110.80 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › DNA double-strand break repair nuclease 0.69 38.0 4.89e-01 98.6% 95.2%
6m37B01 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.68 38.0 4.53e-01 90.5% 80.6%
3tnjA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.68 36.0 3.98e-01 74.3% 62.0%
3fdxA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.62 34.0 3.64e-01 83.8% 59.8%
2o3rA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.61 41.0 4.48e-01 95.9% 81.5%
4g6uA02 3.40.1350.110 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.61 48.0 4.99e-01 97.3% 88.4%
3gc6A02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.61 40.0 4.57e-01 95.3% 88.4%
6hcdD00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.59 35.0 3.71e-01 83.8% 63.7%
3ragB00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.58 42.0 3.66e-01 74.3% 76.5%
3ab8A00 3.40.50.12370 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 39.0 3.24e-01 99.3% 38.3%
3fdjA01 3.40.50.10440 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Dihydroxyacetone kinase; domain 1 0.58 31.0 3.53e-01 85.8% 68.8%
3dmyA03 3.40.50.261 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Succinyl-CoA synthetase domains 0.57 39.0 3.77e-01 100.0% 62.0%
1rliD00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.56 43.0 4.14e-01 100.0% 70.8%
6acsA00 3.40.1180.10 Alpha Beta › 3-Layer(aba) Sandwich › Undecaprenyl pyrophosphate synthetase › Decaprenyl diphosphate synthase-like 0.55 40.0 3.54e-01 100.0% 49.8%
4jz5A00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.55 45.0 4.05e-01 100.0% 63.1%
7y11A01 3.40.525.10 Alpha Beta › 3-Layer(aba) Sandwich › Phosphatidylinositol Transfer Protein Sec14p › CRAL-TRIO lipid binding domain 0.55 43.0 3.95e-01 92.6% 62.0%
4rr9A01 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.54 40.0 4.19e-01 89.9% 85.1%
2wjeA00 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.54 38.0 3.26e-01 100.0% 43.9%
6se1A01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.54 48.0 4.10e-01 100.0% 89.2%
3edeA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.53 48.0 3.51e-01 100.0% 48.9%
3d7nA00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.53 42.0 4.21e-01 95.9% 79.6%
3g23A02 3.50.30.60 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › LD-carboxypeptidase A C-terminal domain-like 0.53 37.0 4.22e-01 100.0% 99.0%
7e0wA01 3.40.525.10 Alpha Beta › 3-Layer(aba) Sandwich › Phosphatidylinositol Transfer Protein Sec14p › CRAL-TRIO lipid binding domain 0.53 36.0 3.63e-01 93.2% 67.8%
1r0sA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 41.0 4.30e-01 95.3% 91.7%
4rgbA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 46.0 3.84e-01 98.6% 69.7%
1di0A00 3.40.50.960 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Lumazine/riboflavin synthase 0.52 35.0 3.52e-01 89.9% 66.9%
2bgwB01 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 38.0 4.00e-01 100.0% 87.0%
4o1eB00 3.20.20.20 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Dihydropteroate synthase-like 0.51 47.0 3.83e-01 100.0% 58.4%
1olmC01 3.40.525.10 Alpha Beta › 3-Layer(aba) Sandwich › Phosphatidylinositol Transfer Protein Sec14p › CRAL-TRIO lipid binding domain 0.51 43.0 3.51e-01 91.9% 65.4%
1fcqA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.51 46.0 3.62e-01 100.0% 67.2%
6xgzB01 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.51 30.0 3.66e-01 87.2% 95.6%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3976507 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.95 92.0 7.99e-01 100.0% 75.1%
3941458 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.75 67.0 6.22e-01 100.0% 77.8%
3652829 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.74 38.0 3.92e-01 86.5% 51.4%
4985079 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.70 37.0 3.89e-01 70.9% 55.6%
4948966 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.67 35.0 2.95e-01 84.5% 29.3%
3647789 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.66 43.0 3.36e-01 91.9% 31.1%
4963368 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.66 36.0 3.80e-01 70.9% 58.5%
4961979 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.65 34.0 3.54e-01 84.5% 52.9%
3503419 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.64 48.0 4.80e-01 100.0% 76.0%
3452376 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.63 38.0 3.89e-01 79.7% 59.7%
5040746 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.63 34.0 3.58e-01 70.3% 56.9%
3351239 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.63 37.0 2.71e-01 91.9% 21.3%
3294222 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.62 40.0 2.89e-01 92.6% 22.7%
4027488 2007.1.14.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like 0.61 39.0 4.16e-01 88.5% 74.4%
3289465 2008.1.1.123 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF6119 0.61 53.0 4.84e-01 98.6% 72.0%
3580801 2007.9.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Toll/Interleukin receptor TIR domain › Toll/Interleukin receptor TIR domain 0.59 46.0 4.65e-01 98.6% 82.1%
4946873 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 48.0 4.62e-01 100.0% 77.0%
3993667 2004.1.1.16 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.58 48.0 4.36e-01 100.0% 66.7%
4977260 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 44.0 4.32e-01 100.0% 74.2%
3175080 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.57 44.0 4.54e-01 93.9% 85.7%
3929484 2008.6.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains 0.56 51.0 4.38e-01 99.3% 65.5%
4481698 2008.1.1.106 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HamA 0.55 50.0 4.33e-01 100.0% 92.7%
3734645 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 47.0 3.75e-01 92.6% 75.0%
4602919 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.55 35.0 3.56e-01 95.3% 62.0%
4945971 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.54 48.0 4.44e-01 95.3% 81.1%
3564716 2496.1.1.2 ↗ a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › STAS 0.53 44.0 3.96e-01 90.5% 65.0%
3258324 2008.1.1.156 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF29906 0.53 42.0 4.17e-01 100.0% 78.8%
3547923 2004.1.1.249 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MCM3AP_GANP 0.53 48.0 4.03e-01 100.0% 79.2%
4031793 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.53 48.0 3.19e-01 100.0% 40.8%
4016213 2004.1.1.366 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NPHP3_N 0.52 45.0 3.54e-01 93.9% 67.2%
3728175 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.50 42.0 3.77e-01 90.5% 89.5%
152052 2007.1.13.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Lumazine synthase › DMRL_synthase 0.50 39.0 3.89e-01 84.5% 76.6%
5000334 2484.1.1.7 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ribosomal_S11 0.50 37.0 3.90e-01 78.4% 86.9%
4951254 2007.2.1.6 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › Flavodoxin_5 0.50 44.0 4.21e-01 95.9% 83.3%
D2 high residues 206-357
PDB
Domain cluster: rep: ERMGT119_2_scaffold_6_prodigal-single.1__X__X__00305__D55-230
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF10592.15 best AIPR 95.5 6.80e-27 69.7% 38.4%
D3 medium residues 1-41_190-204
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yozA00 1.10.3200.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › AF0941-like 0.61 42.0 3.40e-01 73.2% 94.7%
1w36C06 1.10.10.990 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.58 38.0 3.58e-01 87.5% 52.8%
2k85A00 1.10.10.440 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain 0.57 39.0 3.77e-01 71.4% 61.5%
1c0pA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.50 41.0 2.84e-01 91.1% 93.0%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3407066 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.53 39.0 2.69e-01 82.1% 23.6%
5060559 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.51 44.0 4.37e-01 98.2% 93.3%
D4 medium residues 358-450
PDB
Domain cluster: rep: IMGVR_UViG_3300025659_000635-3300025659-Ga0209249_10054883__D355-441
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5grqA00 1.10.8.810 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Daxx helical bundle domain 0.58 35.0 3.60e-01 98.9% 62.2%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5016949 148.1.3.408 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AIPR 0.75 62.0 5.07e-01 90.3% 50.0%
D5 medium residues 451-569
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2mqaA00 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.60 41.0 4.11e-01 70.6% 100.0%
4zqeA03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.58 42.0 4.59e-01 90.8% 92.7%
3rylA01 1.20.120.1210 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 36.0 3.47e-01 74.8% 53.3%
4h3tA02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.55 41.0 3.90e-01 78.2% 73.0%
3fbzA01 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 37.0 3.98e-01 99.2% 84.3%
6ldiF01 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 0.51 38.0 4.18e-01 91.6% 97.9%
3tc1B00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.50 44.0 3.32e-01 98.3% 57.4%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3988045 5076.2.1.2 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › DUF975 0.55 49.0 3.75e-01 98.3% 60.0%
3892941 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.52 40.0 3.03e-01 84.0% 71.8%
3229637 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.52 41.0 3.00e-01 84.0% 76.5%
4641463 5050.1.1.54 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Mntp 0.52 36.0 3.17e-01 72.3% 61.6%
3485471 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.51 38.0 3.21e-01 78.2% 62.4%