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OP583592.1__WAX24071.1__GF2_00005__00005

Bact-Vir

OP583592.1__WAX24071.1__GF2_00005__00005

Identity

Accession:
OP583592 ↗
Kingdom:
phage

Quality

60.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autonotataviridae› Pradovirus› Xanthomonas_phage_GF2

TaxID: 3003370

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 108-201
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u7nA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.60 52.0 3.67e-01 100.0% 49.2%
1x60A01 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.55 40.0 4.48e-01 100.0% 97.2%
1zpwX00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 37.0 3.92e-01 100.0% 79.3%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5039777 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.70 57.0 3.76e-01 100.0% 21.3%
4487906 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.59 40.0 4.15e-01 100.0% 73.3%
4402584 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.58 40.0 4.26e-01 100.0% 82.5%
4947559 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.58 39.0 4.04e-01 100.0% 73.3%
4641170 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.57 39.0 3.99e-01 100.0% 73.3%
4426624 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.56 38.0 3.94e-01 100.0% 76.5%
5043432 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.56 38.0 3.91e-01 100.0% 73.3%
4568770 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.56 37.0 3.87e-01 100.0% 75.3%
4944359 304.56.1.0 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like 0.56 37.0 3.87e-01 100.0% 75.3%
5042208 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.55 37.0 3.81e-01 100.0% 73.3%
4316258 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.53 37.0 3.87e-01 100.0% 81.2%
3924774 2004.1.1.104 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sulfotransfer_2 0.53 45.0 3.41e-01 97.9% 79.2%
4468258 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.52 35.0 3.59e-01 100.0% 70.5%
3923380 2004.1.1.104 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sulfotransfer_2 0.51 44.0 3.26e-01 97.9% 74.3%
3966036 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.51 45.0 4.33e-01 100.0% 90.0%
4414821 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.50 36.0 3.60e-01 100.0% 74.5%
3241455 2004.1.1.104 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sulfotransfer_2 0.50 43.0 3.29e-01 97.9% 78.2%
D2 high residues 212-270
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3zjaA01 2.60.40.1890 Mainly Beta › Sandwich › Immunoglobulin-like › PCu(A)C copper chaperone 0.61 40.0 3.23e-01 100.0% 37.7%
6ui4A03 1.20.5.4820 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.58 45.0 4.03e-01 86.4% 88.4%
2fhzA00 3.30.190.30 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › 0.57 49.0 4.08e-01 100.0% 56.6%
2wnhA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.56 42.0 2.64e-01 84.7% 95.2%
2e5rA00 3.30.60.90 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Zinc finger, ZZ-type 0.56 35.0 3.50e-01 100.0% 60.3%
6hfxA01 3.30.70.3040 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 41.0 3.58e-01 88.1% 100.0%
5t89Y06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 45.0 3.93e-01 100.0% 62.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 39.0 3.69e-01 98.3% 65.8%
3fgvA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 3.85e-01 96.6% 100.0%
3mahA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 42.0 4.08e-01 98.3% 100.0%
1b3qB03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 30.0 2.96e-01 100.0% 47.1%
2wcyA01 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.51 32.0 3.05e-01 100.0% 49.3%
3gwiA00 3.40.1110.10 Alpha Beta › 3-Layer(aba) Sandwich › Calcium-transporting ATPase, cytoplasmic domain N › Calcium-transporting ATPase, cytoplasmic domain N 0.51 41.0 3.17e-01 100.0% 99.4%
2qenA03 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 35.0 3.36e-01 72.9% 85.7%
1okgA02 3.40.250.10 Alpha Beta › 3-Layer(aba) Sandwich › Oxidized Rhodanese; domain 1 › Rhodanese-like domain 0.50 37.0 2.88e-01 79.7% 73.0%
4a0gC03 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.50 37.0 2.59e-01 83.1% 50.4%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3577173 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.65 52.0 4.26e-01 100.0% 48.6%
4673340 2003.1.5.174 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_15 0.64 45.0 2.79e-01 76.3% 30.7%
None — 0.63 44.0 2.73e-01 76.3% 30.7%
4992876 316.2.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Rv2827c C-terminal domain-like › Rv2827c C-terminal domain-like 0.58 46.0 3.35e-01 91.5% 48.1%
3853979 101.1.2.573 ↗ alpha arrays › HTH › HTH › winged helix domain › NPHP3_hel 0.57 44.0 3.40e-01 83.1% 52.3%
3774148 148.1.3.221 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › NPHP3_hel 0.57 44.0 2.75e-01 83.1% 21.6%
5027669 2003.1.5.22 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_Mtase 0.57 43.0 2.78e-01 86.4% 76.6%
5044812 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 45.0 3.06e-01 89.8% 61.8%
4965902 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 42.0 3.45e-01 79.7% 58.1%
4963432 4076.2.1.7 ↗ a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like › DUF5817 0.56 43.0 3.81e-01 83.1% 72.9%
4647160 4222.1.1.1 ↗ a+b two layers › ImmE5-like › ImmE5-like › ImmE5-like › ImmE5 0.55 47.0 4.00e-01 100.0% 56.2%
3175305 101.1.2.167 ↗ alpha arrays › HTH › HTH › winged helix domain › XRN1_D2_D3 0.55 42.0 3.36e-01 86.4% 66.2%
3447913 101.1.2.386 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_DRP 0.54 42.0 3.49e-01 88.1% 57.3%
5057564 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.53 35.0 2.74e-01 71.2% 61.3%
5018966 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 3.37e-01 100.0% 43.2%
3728468 327.5.1.7 ↗ a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › Mug62 0.51 39.0 3.00e-01 89.8% 62.4%
5014144 2008.1.1.51 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › McrBC 0.51 38.0 2.76e-01 83.1% 92.6%
3734179 101.1.2.359 ↗ alpha arrays › HTH › HTH › winged helix domain › GPIID_WHD 0.51 37.0 3.29e-01 78.0% 75.6%
4982137 4033.1.1.1 ↗ alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA_dh_N 0.51 36.0 3.39e-01 74.6% 76.0%
3390907 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 35.0 3.22e-01 74.6% 58.3%
4972929 304.7.1.0 ↗ a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.50 41.0 3.77e-01 100.0% 100.0%
3413735 3435.1.1.6 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › DUF155 0.50 42.0 3.25e-01 100.0% 67.7%
3405169 11.1.1.179 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.50 42.0 3.48e-01 100.0% 51.3%
D3 medium residues 1-58
PDB