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MW825358.1__QVD49094.1__LUCX_24__00024

Bact-Vir

MW825358.1__QVD49094.1__LUCX_24__00024

Identity

Accession:
MW825358 ↗
Kingdom:
phage

Quality

80.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xanthomonas_phage_vB_XciM_LucasX

TaxID: 2829408

Cluster

View cluster (8 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 medium residues 1-132
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1iruI00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 64.0 5.30e-01 99.2% 58.2%
6qm7N00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 64.0 5.33e-01 100.0% 61.0%
1g0uE00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.67 63.0 5.11e-01 100.0% 57.4%
7lxuE01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.67 62.0 5.22e-01 100.0% 62.6%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.66 62.0 5.07e-01 100.0% 58.1%
8f66A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.65 61.0 5.15e-01 100.0% 63.3%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.64 59.0 4.39e-01 99.2% 79.7%
3ke6B01 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.64 56.0 4.68e-01 94.7% 68.8%
3gvzA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.63 59.0 4.64e-01 99.2% 55.9%
2ntkB00 3.60.20.20 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Inosine monophosphate cyclohydrolase-like 0.63 58.0 5.01e-01 100.0% 70.8%
6z46V01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.63 54.0 4.89e-01 99.2% 68.7%
6jkvA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.62 54.0 4.46e-01 93.9% 76.5%
2i52B00 3.30.1300.20 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 7,8-dihydroneopterin aldolase (MptD) 0.56 34.0 3.59e-01 81.8% 68.1%
1s3rA03 3.40.30.40 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Perfringolysin 0.54 38.0 3.89e-01 87.1% 75.2%
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 29.0 3.74e-01 82.6% 88.9%
2iecD00 3.30.1300.20 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 7,8-dihydroneopterin aldolase (MptD) 0.52 33.0 3.57e-01 81.1% 73.5%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3543547 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 66.0 5.53e-01 100.0% 60.7%
4354137 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 67.0 5.55e-01 100.0% 61.2%
4167904 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 66.0 5.56e-01 100.0% 63.4%
4027378 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 65.0 5.11e-01 100.0% 50.6%
3789058 210.1.4.1 ↗ a+b four layers › Ntn/PP2C › Ntn › (Glycosyl)asparaginase › Asparaginase_2 0.71 62.0 4.62e-01 93.9% 47.9%
4933457 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 66.0 5.41e-01 100.0% 59.1%
3191231 210.1.1.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Pr_beta_C 0.70 65.0 5.30e-01 100.0% 56.3%
5035535 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 65.0 5.49e-01 100.0% 61.9%
3479088 210.1.1.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.70 65.0 5.34e-01 100.0% 57.8%
4556297 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 65.0 5.57e-01 100.0% 65.7%
3252053 210.1.1.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Pr_beta_C 0.70 64.0 5.04e-01 100.0% 50.6%
4302934 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 65.0 5.60e-01 100.0% 67.2%
4934530 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 64.0 5.55e-01 100.0% 66.7%
4945506 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 65.0 5.47e-01 100.0% 62.9%
5078250 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 64.0 5.45e-01 100.0% 64.9%
2980434 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 64.0 5.53e-01 100.0% 67.9%
3594178 210.1.1.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.69 64.0 5.36e-01 100.0% 61.9%
3098606 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 64.0 5.32e-01 100.0% 60.5%
3851341 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.68 64.0 5.10e-01 100.0% 54.3%
3271973 210.2.1.1 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.68 59.0 4.62e-01 93.9% 73.7%
4928312 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 62.0 5.40e-01 100.0% 67.2%
4426708 210.1.1.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.67 63.0 5.01e-01 100.0% 54.3%
4945542 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 62.0 5.25e-01 100.0% 63.4%
3207107 210.1.1.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.67 63.0 4.88e-01 100.0% 49.8%
3998259 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 63.0 5.06e-01 100.0% 56.2%
4015062 210.1.1.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.67 62.0 4.93e-01 100.0% 51.8%
3506615 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 63.0 5.18e-01 100.0% 60.0%
4998349 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.66 62.0 5.25e-01 100.0% 63.5%
4932317 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.66 62.0 5.24e-01 100.0% 65.4%
4948083 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.66 58.0 5.04e-01 100.0% 62.4%
2980418 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.65 61.0 4.96e-01 100.0% 57.0%
3285001 210.1.2.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain 0.65 58.0 4.32e-01 97.0% 57.9%
3693583 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.64 57.0 4.71e-01 94.7% 59.1%
5065765 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.64 56.0 4.94e-01 100.0% 64.3%
4979383 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.64 57.0 4.90e-01 100.0% 62.4%
134473 210.1.2.4 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › AAT 0.63 59.0 4.64e-01 99.2% 55.9%
3908924 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.63 54.0 4.41e-01 100.0% 49.0%
5079197 375.1.1.298 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_HMPTM 0.63 25.0 4.03e-01 87.9% 98.0%
4877910 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.62 43.0 4.02e-01 70.5% 58.6%
2507070 210.2.1.3 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C_2 0.62 54.0 4.46e-01 93.9% 76.5%
4672450 210.1.1.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › DUF2121 0.60 54.0 4.60e-01 100.0% 61.0%
3546306 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.60 33.0 3.92e-01 90.2% 76.8%
4950432 210.1.1.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › DUF2121 0.60 53.0 4.66e-01 100.0% 65.8%
5044032 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.56 49.0 4.49e-01 93.2% 85.9%
3804495 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.50 44.0 3.32e-01 98.5% 89.0%
D2 medium residues 133-217
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3h4cA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.66 36.0 3.44e-01 80.0% 45.8%
4citA00 1.10.606.20 Mainly Alpha › Orthogonal Bundle › Vanadium-containing Chloroperoxidase; domain 2 › 0.64 49.0 3.13e-01 81.2% 69.0%
5bpdD01 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 0.63 42.0 4.52e-01 81.2% 78.7%
1kz7C02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 44.0 3.73e-01 80.0% 45.3%
6jlzA01 1.20.120.1070 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Translation initiation factor eIF-2B, N-terminal domain 0.61 49.0 4.57e-01 89.4% 100.0%
2d6fC03 1.10.150.380 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › GatB domain, N-terminal subdomain 0.61 32.0 4.04e-01 75.3% 84.6%
3lv0A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.60 41.0 3.53e-01 70.6% 94.2%
3ecsC01 1.20.120.1070 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Translation initiation factor eIF-2B, N-terminal domain 0.60 44.0 4.21e-01 77.6% 98.0%
3lxqA01 3.30.1120.80 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.56 33.0 3.21e-01 87.1% 49.5%
3mx3A01 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 45.0 3.47e-01 94.1% 47.5%
1u9lB00 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.53 35.0 3.84e-01 83.5% 81.4%
7z6eA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 36.0 3.25e-01 74.1% 54.9%
1wr2A02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.51 38.0 3.98e-01 91.8% 85.9%
2rdpA00 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 39.0 3.29e-01 81.2% 69.3%
2zxrA01 2.40.50.460 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 35.0 2.84e-01 70.6% 44.3%
2gfhA02 1.20.120.710 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Haloacid dehalogenase hydrolase-like domain 0.51 36.0 3.66e-01 87.1% 74.4%
1z87A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 31.0 2.98e-01 70.6% 51.0%
4krdB00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.50 38.0 3.02e-01 83.5% 61.6%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3580090 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.76 44.0 3.73e-01 88.2% 37.7%
3773509 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 40.0 4.67e-01 74.1% 90.0%
4000895 148.1.3.24 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_7 0.63 36.0 3.08e-01 92.9% 34.8%
3740226 5051.1.1.7 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Nramp 0.62 51.0 3.20e-01 89.4% 82.0%
3480535 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 41.0 3.87e-01 80.0% 55.2%
3271679 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 43.0 3.65e-01 80.0% 42.8%
2387854 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.59 45.0 3.01e-01 82.4% 83.0%
5044544 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.58 45.0 3.41e-01 87.1% 97.8%
3393722 101.1.2.149 ↗ alpha arrays › HTH › HTH › winged helix domain › Costars 0.57 42.0 3.69e-01 76.5% 78.4%
3802552 601.1.1.91 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › DUF1218 0.57 46.0 3.74e-01 88.2% 92.7%
4932325 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.55 48.0 4.56e-01 96.5% 99.0%
3693835 601.1.1.90 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › DUF3433 0.52 39.0 3.15e-01 80.0% 92.4%
4997639 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 46.0 4.33e-01 100.0% 82.9%
4996085 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.51 35.0 3.34e-01 70.6% 84.0%
3583067 109.4.1.182 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HUS,DCB 0.51 40.0 2.38e-01 83.5% 13.1%
5011866 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.51 35.0 2.67e-01 74.1% 41.7%
3168929 4323.1.1.1 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.51 41.0 3.22e-01 87.1% 72.0%
3552533 101.1.2.12 ↗ alpha arrays › HTH › HTH › winged helix domain › DEP 0.50 30.0 2.87e-01 83.5% 50.0%
5075628 873.1.1.1 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.50 36.0 3.02e-01 75.3% 86.7%
3781851 5050.1.1.32 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Acatn 0.50 39.0 2.86e-01 84.7% 86.5%
4968246 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.50 42.0 3.82e-01 98.8% 87.2%