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ON758385.1__USV40972.1__X__00146

Bact-Vir

ON758385.1__USV40972.1__X__00146

Identity

Accession:
ON758385 ↗
Kingdom:
phage

Quality

78.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xanthomonas_phage_BUDD

TaxID: 2961708

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 54-102
PDB
Domain cluster: rep: Salt_Pond_R1_B_D2_MG_scaffold_4_prodigal-single.1__X__X__00097__D12-59
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3aa0B01 1.20.58.570 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › F-actin capping protein, alpha/beta subunit, N-terminal domain 0.77 53.0 4.43e-01 100.0% 40.9%
1g5hA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.68 52.0 3.18e-01 83.7% 69.9%
3vpbE00 2.20.28.160 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.66 44.0 4.32e-01 98.0% 62.5%
1fm2B03 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.63 47.0 4.36e-01 83.7% 80.3%
1nqzA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.61 50.0 3.59e-01 100.0% 76.0%
6s6yD02 3.30.70.520 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 48.0 3.50e-01 93.9% 41.7%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 46.0 3.75e-01 85.7% 86.3%
4yfbC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.60 44.0 3.92e-01 83.7% 73.1%
3qu1A00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.60 45.0 3.24e-01 87.8% 40.5%
2h1eA02 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 41.0 4.03e-01 93.9% 67.3%
4wksC02 2.30.120.10 Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region 0.59 44.0 3.90e-01 83.7% 74.7%
1rl4B00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.59 45.0 3.26e-01 87.8% 39.1%
2v79A00 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 0.58 47.0 3.56e-01 89.8% 65.2%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 48.0 4.32e-01 100.0% 77.8%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.57 41.0 3.02e-01 100.0% 24.8%
2eixA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.57 45.0 3.49e-01 85.7% 51.9%
3jcuO01 2.40.160.30 Mainly Beta › Beta Barrel › Porin › Photosystem II, cytochrome c-550 precursor 0.55 42.0 2.93e-01 85.7% 72.2%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 41.0 2.75e-01 85.7% 27.9%
1ilvA00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.54 41.0 2.66e-01 83.7% 42.9%
4zg5A00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.54 43.0 2.76e-01 87.8% 45.3%
3r0aA00 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 0.54 41.0 3.18e-01 85.7% 60.0%
2xepB01 3.10.450.280 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 41.0 3.21e-01 85.7% 55.3%
2peeB02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.53 40.0 3.15e-01 91.8% 84.0%
2mh9A00 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 0.53 40.0 3.07e-01 85.7% 78.0%
1dw9A02 3.30.1160.10 Alpha Beta › 2-Layer Sandwich › Cyanate Lyase; Chain: A, domain 2 › Cyanate lyase, C-terminal domain 0.53 37.0 3.50e-01 79.6% 67.6%
3j7aZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.51 41.0 3.80e-01 100.0% 88.9%
2v1yA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 45.0 3.72e-01 100.0% 57.3%
4lduA02 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.51 43.0 3.32e-01 91.8% 50.0%
5os9A00 2.40.330.10 Mainly Beta › Beta Barrel › At1g16640 B3 domain › DNA-binding pseudobarrel domain 0.51 40.0 3.12e-01 89.8% 47.0%
3d9wA02 2.40.128.150 Mainly Beta › Beta Barrel › Lipocalin › Cysteine proteinases 0.50 39.0 3.32e-01 100.0% 55.9%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4379431 376.1.6.12 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain › Tmemb_55A 0.82 55.0 4.69e-01 98.0% 45.3%
4025860 4050.1.1.1 ↗ few secondary structure elements › beta-barrel domain in Capz › beta-barrel domain in Capz › beta-barrel domain in Capz › F_actin_cap_B 0.79 54.0 5.63e-01 100.0% 80.0%
5039298 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.78 53.0 6.10e-01 98.0% 100.0%
1504294 4050.1.1.1 ↗ few secondary structure elements › beta-barrel domain in Capz › beta-barrel domain in Capz › beta-barrel domain in Capz › F_actin_cap_B 0.77 53.0 5.63e-01 100.0% 85.7%
3343242 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.77 54.0 5.84e-01 100.0% 90.0%
5028514 375.1.1.63 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › LysW-like_globular 0.74 53.0 4.99e-01 100.0% 61.7%
5034626 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 49.0 5.34e-01 100.0% 90.0%
4930955 7099.1.1.1 ↗ a+b complex topology › VP5 N-terminal domain › VP5 N-terminal domain › VP5 N-terminal domain › Viral_env_HRPV 0.70 58.0 3.60e-01 100.0% 25.5%
None — 0.70 47.0 2.84e-01 100.0% 9.6%
3473279 2003.1.5.102 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DUF4471 0.67 52.0 3.28e-01 87.8% 33.5%
3750856 314.1.1.0 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.66 51.0 3.06e-01 83.7% 66.9%
3937634 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.63 51.0 3.76e-01 95.9% 71.7%
4944389 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 52.0 4.82e-01 100.0% 81.5%
6230 221.4.1.1 ↗ a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.61 50.0 3.59e-01 100.0% 76.0%
3717029 109.4.1.116 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RIH_assoc 0.60 46.0 2.65e-01 83.7% 16.2%
4024862 708.1.2.11 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › STEEP1 0.60 46.0 3.72e-01 93.9% 65.2%
4002747 109.4.1.1812 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RYDR_ITPR, RIH_assoc 0.60 49.0 2.60e-01 91.8% 8.2%
4443502 109.4.1.116 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RIH_assoc 0.59 48.0 2.73e-01 91.8% 19.3%
3442564 252.1.1.0 ↗ a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD 0.58 40.0 3.93e-01 100.0% 67.3%
3587698 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.57 49.0 3.33e-01 95.9% 95.6%
3940690 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 46.0 3.80e-01 100.0% 84.8%
3781077 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.57 49.0 3.91e-01 100.0% 71.8%
3659202 1.1.11.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain 0.57 46.0 3.94e-01 89.8% 66.3%
4941547 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.57 46.0 3.70e-01 91.8% 91.0%
4256308 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.57 43.0 3.17e-01 89.8% 38.1%
3232445 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 38.0 3.63e-01 100.0% 58.3%
3724091 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.56 46.0 2.94e-01 95.9% 68.2%
3740693 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.55 43.0 2.45e-01 89.8% 31.9%
3632684 101.1.21.0 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase 0.55 47.0 2.67e-01 95.9% 40.4%
3531830 11.1.1.363 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_3 0.55 38.0 3.04e-01 75.5% 54.5%
3690788 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.55 44.0 2.84e-01 95.9% 73.7%
3684771 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.54 45.0 3.26e-01 95.9% 91.7%
3188774 4.1.1.146 ↗ beta barrels › SH3 › SH3 › SH3 › Ribosomal_uL24m-like 0.54 44.0 2.79e-01 100.0% 16.2%
3987299 289.1.1.1 ↗ a+b complex topology › Peptide deformylase › Peptide deformylase › Peptide deformylase › Pep_deformylase 0.54 42.0 3.23e-01 93.9% 42.2%
4029544 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 40.0 3.06e-01 87.8% 50.0%
3994778 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 41.0 2.96e-01 83.7% 38.1%
3778889 11.1.1.108 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.54 37.0 2.76e-01 73.5% 44.3%
4019993 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.53 44.0 2.77e-01 95.9% 75.6%
4056773 325.1.7.3 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.52 42.0 3.58e-01 91.8% 97.6%
3169674 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.52 40.0 2.55e-01 85.7% 48.5%
3948312 4023.1.1.0 ↗ a+b two layers › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core 0.52 42.0 3.46e-01 98.0% 58.0%
4807995 4.1.1.314 ↗ beta barrels › SH3 › SH3 › SH3 › KOW, Ribosomal_uL24m-like 0.52 38.0 2.59e-01 89.8% 19.1%
3798928 59.1.4.2 ↗ beta complex topology › triple barrel › triple barrel › TFIID subunits TAF1-TAF7 › DUF3591 0.52 38.0 2.32e-01 89.8% 15.3%
4028738 5.1.4.11 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Clathrin_propel 0.52 43.0 2.66e-01 100.0% 27.8%
4418514 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.51 37.0 2.20e-01 83.7% 17.3%
3964724 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.50 41.0 2.99e-01 98.0% 93.5%