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NC_052966.1__YP_009996998.1__JTY55_gp75__00075

Bact-Vir

NC_052966.1__YP_009996998.1__JTY55_gp75__00075

Identity

Accession:
NC_052966 ↗
Kingdom:
phage

Quality

83.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Mesyanzhinovviridae› Xooduovirus› Xanthomonas_phage_Xoo-sp2

TaxID: 1852622

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 4-67
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.96 65.0 5.30e-01 70.3% 56.6%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.92 63.0 5.10e-01 73.4% 41.3%
2zdiC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.89 64.0 4.71e-01 100.0% 32.4%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.88 57.0 4.94e-01 70.3% 45.7%
4cllA01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.72 49.0 3.42e-01 81.2% 21.9%
1xexB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.70 47.0 3.52e-01 70.3% 29.8%
3viqA00 6.10.140.1020 Special › Helix non-globular › Helix Hairpins › 0.69 49.0 3.94e-01 98.4% 38.5%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.64 44.0 3.69e-01 78.1% 42.2%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 55.0 3.86e-01 100.0% 31.9%
2xzmG00 1.10.455.10 Mainly Alpha › Orthogonal Bundle › Ribosomal Protein S7 › Ribosomal protein S7/S5 0.63 44.0 3.11e-01 73.4% 81.2%
7qprA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.60 43.0 3.37e-01 75.0% 53.3%
7b1xA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.59 40.0 2.63e-01 70.3% 63.7%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 42.0 2.90e-01 76.6% 49.0%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.56 40.0 3.13e-01 75.0% 45.3%
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 39.0 2.69e-01 81.2% 23.1%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 38.0 2.60e-01 76.6% 44.2%
6tmfI00 1.10.455.10 Mainly Alpha › Orthogonal Bundle › Ribosomal Protein S7 › Ribosomal protein S7/S5 0.52 35.0 2.56e-01 73.4% 89.3%
3emiA00 3.90.1780.10 Alpha Beta › Alpha-Beta Complex › Trimeric adhesin › Trimeric adhesin 0.52 44.0 3.78e-01 100.0% 96.4%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.51 36.0 2.61e-01 76.6% 47.1%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1000517 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.96 65.0 5.39e-01 70.3% 59.4%
4181293 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.95 65.0 5.22e-01 70.3% 40.9%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.95 65.0 5.06e-01 70.3% 37.5%
4224821 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.95 65.0 5.14e-01 70.3% 39.1%
4953135 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.95 67.0 4.93e-01 100.0% 32.4%
3586018 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.93 66.0 4.91e-01 73.4% 33.6%
5029669 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.91 65.0 5.07e-01 73.4% 39.2%
4112182 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.91 64.0 5.08e-01 73.4% 39.8%
4949473 5086.1.1.230 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ATP-synt_D 0.90 64.0 4.25e-01 100.0% 22.0%
3406351 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.89 67.0 5.39e-01 100.0% 45.5%
3394225 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.89 67.0 5.29e-01 100.0% 43.5%
139279 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.88 57.0 4.94e-01 70.3% 45.7%
4995244 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.87 61.0 4.98e-01 100.0% 42.7%
4381440 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.83 64.0 5.07e-01 100.0% 44.3%
3579472 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.81 69.0 5.30e-01 90.6% 65.4%
4995146 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 0.81 55.0 4.78e-01 70.3% 50.0%
3228583 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.80 68.0 5.45e-01 90.6% 73.9%
3392569 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.78 65.0 5.15e-01 90.6% 67.2%
4977598 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.77 67.0 5.46e-01 92.2% 71.8%
3466238 206.1.1.14 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.76 52.0 3.10e-01 71.9% 10.4%
5000798 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.76 60.0 4.16e-01 82.8% 79.5%
3550136 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.74 62.0 5.04e-01 90.6% 61.7%
3593339 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.74 63.0 5.06e-01 90.6% 67.8%
3781291 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.73 59.0 5.08e-01 87.5% 73.0%
3381794 207.1.1.57 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRRNT_2,LRR_4,LRR_6,LRR_8 0.72 66.0 3.59e-01 100.0% 8.1%
4662222 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.72 65.0 5.23e-01 98.4% 54.2%
4025349 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.72 65.0 5.07e-01 98.4% 48.5%
3747930 6006.1.1.4 ↗ extended segments › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › PF28678 0.69 60.0 5.54e-01 95.3% 100.0%
3935332 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.68 58.0 4.62e-01 100.0% 46.9%
3259532 167.1.1.1 ↗ alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 0.63 48.0 3.60e-01 98.4% 34.7%
3803650 109.4.1.1335 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, E_motif 0.62 43.0 2.45e-01 71.9% 10.0%
3684538 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.60 53.0 3.91e-01 96.9% 55.0%
3653902 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.59 45.0 3.15e-01 84.4% 35.8%
3413597 101.1.2.394 ↗ alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 0.58 39.0 2.44e-01 70.3% 39.1%
4153047 167.1.1.1 ↗ alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 0.56 37.0 2.87e-01 70.3% 64.7%
3465965 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.52 46.0 2.75e-01 96.9% 91.9%
3508353 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.50 41.0 2.82e-01 93.8% 66.0%