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KY853667.1__ARK07720.1__X__00002

Bact-Vir

KY853667.1__ARK07720.1__X__00002

Identity

Accession:
KY853667 ↗
Kingdom:
phage

Quality

74.6 mean pLDDT

Taxonomy

Loebvirae› Hofneiviricota› Faserviricetes› Tubulavirales› Inoviridae› Xylivirus› Xanthomonas_phage_Xf409

TaxID: 1979540

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 69-126
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ph0C00 1.25.40.1040 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.73 51.0 5.33e-01 74.1% 84.9%
2r5sA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.72 52.0 4.50e-01 79.3% 50.0%
1hzfA00 1.50.10.20 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.69 60.0 3.82e-01 100.0% 69.2%
1s1fA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.69 46.0 2.75e-01 70.7% 10.1%
3dfgA03 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 0.69 43.0 4.69e-01 70.7% 77.1%
5haxA01 1.20.58.1780 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 49.0 3.25e-01 77.6% 28.0%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.65 54.0 4.89e-01 98.3% 95.3%
3rqzC00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.65 46.0 3.03e-01 74.1% 94.3%
2uyyA02 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 0.65 53.0 4.20e-01 91.4% 82.1%
1jr8A00 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.64 45.0 3.64e-01 72.4% 86.7%
3h5qA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.63 44.0 4.19e-01 74.1% 68.6%
2wvxA04 1.20.1610.10 Mainly Alpha › Up-down Bundle › Glycosyl hydrolase family fold › alpha-1,2-mannosidases domains 0.63 45.0 3.20e-01 75.9% 35.8%
4e21B02 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 0.63 52.0 4.04e-01 96.6% 87.6%
4ga4A01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.62 45.0 4.30e-01 77.6% 70.1%
4hwhE00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.61 42.0 3.74e-01 74.1% 80.7%
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 0.60 45.0 3.56e-01 82.8% 97.7%
2pvqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 44.0 3.67e-01 79.3% 79.2%
1sz9C00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.59 48.0 3.77e-01 94.8% 76.4%
3beyD00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.59 49.0 4.21e-01 93.1% 68.1%
1dgfA03 1.20.1370.60 Mainly Alpha › Up-down Bundle › Hemocyanin, N-terminal domain › 0.59 44.0 3.50e-01 79.3% 44.7%
3gwnA00 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.59 40.0 3.26e-01 70.7% 66.4%
2a3vB01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.59 42.0 3.64e-01 77.6% 53.2%
2dsjA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.58 42.0 4.12e-01 82.8% 95.5%
2gkmA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.57 47.0 3.72e-01 94.8% 58.3%
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.57 40.0 3.48e-01 74.1% 62.9%
2prrA02 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.57 39.0 3.10e-01 72.4% 79.5%
3e3vA03 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 0.56 36.0 3.71e-01 70.7% 67.9%
1cpqA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.56 48.0 3.80e-01 98.3% 77.5%
4wr4A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 45.0 3.86e-01 96.6% 67.6%
1dlwA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 44.0 3.67e-01 94.8% 66.4%
3dtoA01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.55 42.0 3.74e-01 84.5% 85.2%
1q2lA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.55 43.0 2.97e-01 89.7% 57.5%
3w6zA02 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 0.55 47.0 3.72e-01 96.6% 100.0%
3aq5A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 43.0 3.62e-01 94.8% 65.8%
1hciA03 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 45.0 3.60e-01 91.4% 91.7%
2o7gA00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.55 39.0 3.49e-01 77.6% 67.0%
6cy5A01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.54 39.0 3.44e-01 81.0% 49.4%
1f5qB02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 40.0 3.18e-01 87.9% 56.5%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.52 39.0 3.18e-01 81.0% 71.3%
2kiwA01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.52 37.0 3.26e-01 74.1% 52.3%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3939747 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.77 59.0 3.89e-01 82.8% 29.1%
3636835 109.4.1.173 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › NatA_aux_su 0.74 65.0 4.61e-01 100.0% 88.9%
3216366 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.72 53.0 3.79e-01 79.3% 50.0%
3714780 109.4.1.1201 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RESC6 0.71 62.0 4.23e-01 100.0% 80.9%
3701336 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.71 59.0 4.37e-01 93.1% 62.0%
3216888 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.70 52.0 3.72e-01 79.3% 47.6%
3700099 109.4.1.1201 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RESC6 0.70 61.0 4.55e-01 100.0% 96.1%
3381228 109.27.1.3 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain › NPH3 0.70 60.0 4.56e-01 96.6% 46.7%
3196061 109.4.1.2819 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_2, NatA_aux_su, TPR_8, TPR_16, PF31234 0.69 62.0 3.44e-01 100.0% 13.9%
5053124 109.7.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.69 50.0 4.62e-01 77.6% 70.7%
3255324 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.69 54.0 3.53e-01 89.7% 22.5%
3615514 109.4.1.621 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_3 0.69 60.0 4.23e-01 100.0% 66.5%
3710926 109.2.1.99 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid › PF26179 0.68 57.0 3.75e-01 96.6% 41.9%
3171700 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 58.0 4.42e-01 98.3% 67.6%
3592092 109.4.1.1160 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RESC10 0.68 56.0 3.73e-01 96.6% 41.9%
5010958 4033.1.1.0 ↗ alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like 0.68 54.0 4.80e-01 87.9% 96.5%
3229936 109.27.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain › BACK 0.68 51.0 3.83e-01 82.8% 45.3%
3262862 109.4.1.517 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Med24_N 0.68 54.0 4.17e-01 93.1% 68.3%
5059607 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 54.0 4.01e-01 87.9% 50.0%
3499448 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 56.0 3.08e-01 91.4% 15.5%
3282853 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 0.67 46.0 3.32e-01 70.7% 67.5%
1124191 109.34.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › 26S proteasome subunit Rpn2 N-terminal domain › 26S proteasome subunit Rpn2 N-terminal domain › RPN2_N 0.67 58.0 3.62e-01 94.8% 32.7%
4618879 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.66 42.0 4.49e-01 75.9% 76.0%
4995681 3788.1.1.0 ↗ alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.66 45.0 4.41e-01 72.4% 100.0%
3681959 109.27.1.3 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain › NPH3 0.65 58.0 4.27e-01 100.0% 43.3%
3951780 4246.1.1.2 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 0.64 54.0 3.22e-01 98.3% 13.1%
3738103 184.1.1.0 ↗ alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N 0.63 46.0 4.15e-01 77.6% 61.3%
3229584 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.63 54.0 3.87e-01 93.1% 57.5%
3414918 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.62 52.0 3.67e-01 100.0% 51.0%
3958815 129.1.1.0 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like 0.62 46.0 3.42e-01 81.0% 56.8%
3185412 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 50.0 4.17e-01 93.1% 66.7%
4033612 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.60 37.0 4.02e-01 72.4% 74.0%
4091932 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.59 50.0 3.75e-01 91.4% 94.8%
3345966 4133.1.1.0 ↗ alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like 0.59 49.0 4.48e-01 89.7% 86.7%
4063794 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.59 45.0 3.79e-01 89.7% 72.7%
5030306 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.58 41.0 3.50e-01 74.1% 54.7%
3281351 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.58 49.0 3.13e-01 100.0% 61.8%
3520270 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.58 45.0 3.79e-01 87.9% 57.1%
3227370 109.4.1.17 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin 0.58 43.0 3.51e-01 86.2% 80.0%
5002420 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.57 37.0 3.75e-01 70.7% 65.0%
4033611 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.57 38.0 4.08e-01 70.7% 100.0%
1068638 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.56 36.0 3.71e-01 70.7% 67.9%
3595902 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.56 45.0 3.11e-01 89.7% 26.5%
4031396 181.1.1.1 ↗ 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 › SRP54_N 0.56 40.0 3.29e-01 81.0% 41.9%
3831252 611.3.1.1 ↗ alpha bundles › N-cbl like › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 › Med26 0.54 46.0 3.67e-01 94.8% 54.2%
4022039 1065.1.1.6 ↗ alpha bundles › SPX domain › SPX domain › SPX domain › PLU-1 0.54 47.0 3.37e-01 98.3% 35.4%
4949013 2003.1.12.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › UDPG/MGDP dehydrogenase C-terminal domain › UDPG_MGDP_dh_C 0.54 47.0 3.42e-01 96.6% 94.8%
4145773 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.54 38.0 3.90e-01 74.1% 78.2%
3251818 4133.1.1.0 ↗ alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like 0.54 45.0 4.41e-01 96.6% 100.0%
4465167 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.53 40.0 3.27e-01 81.0% 60.0%
3345965 4982.1.1.3 ↗ alpha arrays › KaiA/RbsU domain-like › KaiA/RbsU domain › KaiA/RbsU domain › Tic110 0.53 42.0 3.09e-01 100.0% 76.0%
5074521 3009.1.1.1 ↗ alpha arrays › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › DSBA 0.51 32.0 2.78e-01 86.2% 36.2%