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NC_052966.1__YP_009996951.1__JTY55_gp28__00028

Bact-Vir

NC_052966.1__YP_009996951.1__JTY55_gp28__00028

Identity

Accession:
NC_052966 ↗
Kingdom:
phage

Quality

79.4 mean pLDDT

Taxonomy

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

TaxID: 1852622

Cluster

View cluster (2 members)

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 39-130
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1n5uA04 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.62 39.0 4.03e-01 97.8% 67.4%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.61 35.0 4.05e-01 91.3% 78.5%
8hbfB01 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.61 50.0 4.02e-01 89.1% 79.0%
2gbbB00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.59 41.0 3.48e-01 100.0% 42.6%
6dewA01 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.59 48.0 3.78e-01 98.9% 42.1%
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 0.58 41.0 4.21e-01 82.6% 77.3%
8b9zK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 37.0 3.76e-01 89.1% 65.9%
2etdA00 1.20.1440.20 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › LemA-like domain 0.57 34.0 2.98e-01 91.3% 39.0%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.56 40.0 3.86e-01 73.9% 70.9%
4jndA01 1.10.1740.220 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.56 42.0 3.80e-01 81.5% 83.8%
3nxcA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 43.0 3.53e-01 97.8% 43.5%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.55 32.0 3.41e-01 81.5% 64.6%
2lkiA00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.55 40.0 4.18e-01 95.7% 86.7%
4it4A02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.54 36.0 3.66e-01 92.4% 69.2%
4jkzA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 43.0 3.51e-01 95.7% 45.8%
4fcaA03 1.10.390.30 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Peptidase M60, enhancin-like domain 3 0.52 43.0 3.66e-01 92.4% 85.6%
1i5nB00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.52 40.0 3.66e-01 82.6% 75.0%
1qkrB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.52 39.0 3.19e-01 81.5% 66.7%
2osaA00 1.10.555.10 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase; Chain A › Rho GTPase activation protein 0.51 45.0 3.58e-01 100.0% 46.4%
7sbeA01 1.10.132.70 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.51 44.0 3.43e-01 100.0% 72.6%
1werA01 1.10.506.10 Mainly Alpha › Orthogonal Bundle › GTPase Activation - p120GAP; domain 1 › GTPase Activation - p120gap; domain 1 0.51 44.0 3.65e-01 100.0% 65.3%
2ff4A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 37.0 3.12e-01 80.4% 92.3%
2gfhA02 1.20.120.710 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain 0.51 37.0 3.86e-01 100.0% 84.9%
1c9bA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.50 36.0 3.55e-01 81.5% 70.1%
3nlcA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 40.0 3.01e-01 88.0% 57.6%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3736887 101.1.1.336 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Tri-helical 0.70 53.0 5.32e-01 100.0% 78.9%
5011233 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.58 32.0 2.93e-01 98.9% 39.2%
4947364 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.58 39.0 3.90e-01 89.1% 67.4%
3282823 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.54 42.0 3.72e-01 97.8% 56.4%
3187195 192.29.1.52 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Anthrone_oxy 0.53 39.0 3.23e-01 77.2% 98.9%
3666876 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.53 35.0 3.17e-01 79.3% 48.5%
3514598 7525.1.1.2 ↗ a/b three-layered sandwiches › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › Phosphoglycerate mutase-like › His_Phos_2 0.52 42.0 2.92e-01 90.2% 46.0%
4482049 5051.1.1.1 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › SNF 0.52 46.0 2.84e-01 100.0% 51.7%
3997950 5069.1.3.56 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › GOST_TM 0.52 30.0 3.07e-01 96.7% 56.7%
4290988 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.52 45.0 3.76e-01 100.0% 65.9%
5044690 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.51 43.0 3.39e-01 100.0% 48.2%