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MN364664.1__QFP93289.1__Xoosp15_24__00024

Bact-Vir

MN364664.1__QFP93289.1__Xoosp15_24__00024

Identity

Accession:
MN364664 ↗
Kingdom:
phage

Quality

85.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Caeruleovirus› Xanthomonas_phage_Xoo-sp15

TaxID: 2608370

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-63
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.77 59.0 5.23e-01 82.0% 100.0%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.69 53.0 5.73e-01 86.9% 100.0%
5cadA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.68 45.0 3.17e-01 85.2% 21.8%
1yleA02 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.68 54.0 5.31e-01 88.5% 81.5%
6gszA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 49.0 4.23e-01 90.2% 50.0%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.64 51.0 4.27e-01 88.5% 58.7%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.64 55.0 5.15e-01 98.4% 94.7%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.64 50.0 4.37e-01 88.5% 61.5%
3q8pB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.62 48.0 4.09e-01 88.5% 62.0%
2htiA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 49.0 3.87e-01 86.9% 68.3%
2hq9B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 47.0 3.66e-01 83.6% 38.7%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.62 48.0 3.56e-01 88.5% 40.7%
3db0B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.61 46.0 3.71e-01 83.6% 43.5%
1aw8B00 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.61 46.0 4.03e-01 82.0% 54.9%
2a2jA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.60 45.0 3.21e-01 82.0% 26.6%
2bnmA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 39.0 3.19e-01 83.6% 34.2%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.60 45.0 3.38e-01 83.6% 31.1%
4yo1A01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.60 47.0 4.20e-01 86.9% 86.5%
5tr9A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 45.0 3.92e-01 82.0% 63.5%
6mv2A02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 44.0 3.80e-01 82.0% 67.6%
1b1zA02 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 43.0 3.48e-01 82.0% 70.6%
2eixA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 44.0 3.73e-01 82.0% 57.5%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 44.0 3.93e-01 83.6% 56.5%
3u5wA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 45.0 3.65e-01 86.9% 69.8%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.58 47.0 4.23e-01 96.7% 75.0%
4n0rA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 40.0 3.69e-01 82.0% 54.1%
2pjyC00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.57 43.0 4.00e-01 82.0% 68.4%
3nd1A02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.57 44.0 3.70e-01 86.9% 47.3%
2n59A00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 45.0 3.87e-01 88.5% 53.5%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.57 47.0 3.94e-01 95.1% 54.1%
5chtB00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.57 46.0 2.89e-01 86.9% 26.7%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.57 43.0 3.46e-01 85.2% 71.4%
4ybnB00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 48.0 3.42e-01 98.4% 78.5%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 44.0 3.81e-01 90.2% 68.3%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.56 42.0 3.71e-01 83.6% 55.3%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 43.0 3.53e-01 88.5% 51.6%
4h3wA02 2.60.120.1260 Mainly Beta › Sandwich › Jelly Rolls › 0.55 43.0 3.32e-01 88.5% 40.1%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.55 40.0 4.00e-01 83.6% 77.3%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.54 40.0 3.39e-01 82.0% 56.9%
6tdxG01 3.40.1380.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › ATP synthase, F1 complex, gamma subunit 0.53 40.0 2.83e-01 85.2% 84.1%
2b39A10 2.60.120.1540 Mainly Beta › Sandwich › Jelly Rolls › 0.53 40.0 3.29e-01 83.6% 59.5%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.52 39.0 3.11e-01 82.0% 39.1%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.52 40.0 3.36e-01 100.0% 46.9%
2zl7A02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.52 38.0 3.49e-01 90.2% 56.0%
3s7iB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 40.0 2.91e-01 85.2% 33.5%
3zn6A02 2.60.40.3410 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 39.0 3.52e-01 82.0% 71.3%
4d0qA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 41.0 3.16e-01 96.7% 53.4%
1te5A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.50 38.0 2.62e-01 96.7% 20.9%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.79 60.0 6.15e-01 82.0% 98.3%
3968122 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.78 54.0 6.17e-01 80.3% 97.8%
4004704 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.76 54.0 6.13e-01 82.0% 100.0%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.76 57.0 6.20e-01 88.5% 98.0%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.76 53.0 6.09e-01 82.0% 100.0%
4995671 3115.1.1.12 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › PF30567 0.76 57.0 6.21e-01 95.1% 98.0%
3415271 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.75 57.0 5.24e-01 82.0% 62.5%
119284 3115.2.1.1 ↗ a+b two layers › GP2-like › GP2 › GP2 › RNA_pol_inhib 0.72 56.0 5.72e-01 95.1% 86.4%
3987406 3115.6.1.1 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › RpoY 0.72 52.0 4.85e-01 77.0% 80.0%
5015713 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.71 52.0 5.33e-01 78.7% 98.3%
5000510 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.70 61.0 5.75e-01 98.4% 96.0%
3396683 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.69 52.0 4.84e-01 82.0% 65.8%
5014684 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.69 56.0 5.74e-01 93.4% 94.8%
4971294 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.67 49.0 4.74e-01 80.3% 72.9%
3668699 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.64 56.0 5.18e-01 100.0% 87.5%
3216210 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.64 47.0 5.04e-01 83.6% 100.0%
3213931 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.64 50.0 4.00e-01 88.5% 52.3%
3587556 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.63 45.0 4.34e-01 77.0% 87.1%
5081134 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.63 46.0 4.67e-01 80.3% 81.7%
3842874 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.63 48.0 4.06e-01 83.6% 73.3%
5007155 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.62 42.0 4.67e-01 78.7% 95.6%
4060264 304.41.1.1 ↗ a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N 0.62 52.0 4.04e-01 98.4% 88.0%
3896560 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.62 53.0 3.94e-01 100.0% 44.7%
3598155 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 49.0 3.99e-01 88.5% 53.3%
5010744 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.61 43.0 4.25e-01 77.0% 100.0%
4151900 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.60 50.0 3.90e-01 100.0% 41.0%
3501768 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.60 44.0 4.30e-01 82.0% 80.0%
4510984 304.41.1.1 ↗ a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N 0.59 49.0 3.74e-01 96.7% 86.5%
3285401 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.59 43.0 4.10e-01 83.6% 65.3%
6193 221.1.1.17 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Stap_Strp_tox_C 0.59 43.0 3.70e-01 83.6% 89.4%
3802249 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.58 42.0 2.47e-01 78.7% 17.1%
5011747 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.57 43.0 3.97e-01 93.4% 61.1%
3358129 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.56 40.0 2.30e-01 78.7% 13.7%
4552457 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.54 41.0 3.62e-01 82.0% 83.3%
4086554 11.10.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › Sina_TRAF 0.54 43.0 3.39e-01 90.2% 45.9%
3584856 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.54 41.0 3.37e-01 82.0% 70.0%
3723416 212.1.1.12 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.53 37.0 3.00e-01 75.4% 52.9%
3553704 382.1.1.1 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.53 42.0 3.71e-01 91.8% 58.9%
4972691 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.52 42.0 3.72e-01 98.4% 82.0%
5066749 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.51 41.0 2.84e-01 98.4% 23.3%
4011254 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.51 35.0 2.29e-01 91.8% 14.5%
5058928 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 38.0 2.43e-01 82.0% 15.7%
3254525 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.51 38.0 3.50e-01 80.3% 100.0%
5034119 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.50 38.0 2.87e-01 91.8% 51.0%