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MZ345003.1__UFZ21857.1__X__00006

Bact-Vir

MZ345003.1__UFZ21857.1__X__00006

Identity

Accession:
MZ345003 ↗
Kingdom:
phage

Quality

62.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Foxunavirus› Xanthomonas_phage_M29

TaxID: 2851082

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 4-44
PDB
Domain cluster: rep: KY629621.2__AQY55344.1__MS1_46__00046__D2-41
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3anwB00 1.20.58.2050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.96 81.0 5.19e-01 100.0% 22.8%
3anwA02 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.88 79.0 6.97e-01 100.0% 82.8%
2hvfA00 3.40.5.10 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › Ribosomal protein L9, N-terminal domain 0.87 73.0 6.73e-01 97.6% 73.1%
2e9xB01 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.81 72.0 6.13e-01 100.0% 71.2%
6u7tA03 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.80 57.0 4.00e-01 75.6% 86.0%
5of3A00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.79 69.0 4.08e-01 100.0% 14.1%
2hjqA01 3.40.5.20 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › YqbF domain 0.74 62.0 6.10e-01 100.0% 93.5%
4tpoA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.69 52.0 2.99e-01 82.9% 15.1%
8sppA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.68 51.0 3.00e-01 82.9% 16.5%
3pe0A03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 57.0 5.02e-01 100.0% 78.1%
6f0cA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.67 50.0 2.90e-01 82.9% 15.7%
3rwlA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.66 49.0 2.84e-01 82.9% 15.1%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.66 46.0 3.41e-01 78.0% 65.0%
4l0fA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.65 47.0 2.69e-01 78.0% 13.5%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 43.0 3.34e-01 80.5% 80.6%
3tm8B00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.58 46.0 2.84e-01 97.6% 31.3%
3wx7A02 2.10.10.90 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.58 40.0 3.18e-01 75.6% 45.3%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.58 42.0 3.16e-01 100.0% 30.1%
3w3sA01 3.30.70.1920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 45.0 3.13e-01 100.0% 57.1%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.55 41.0 2.57e-01 87.8% 63.0%
2gdqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.55 39.0 2.97e-01 78.0% 90.7%
3ijlA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.54 37.0 2.83e-01 73.2% 92.6%
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.53 41.0 3.18e-01 90.2% 89.3%
3l9aX01 3.30.720.180 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.53 41.0 3.52e-01 92.7% 82.7%
2i7xA02 3.40.50.10890 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 40.0 2.73e-01 90.2% 67.6%
1yb3A00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.52 41.0 2.93e-01 97.6% 89.7%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 35.0 3.00e-01 70.7% 100.0%
1vx4407 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 37.0 3.46e-01 95.1% 95.7%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.51 37.0 2.89e-01 75.6% 81.9%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.51 42.0 3.82e-01 100.0% 68.3%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5010674 4076.3.1.11 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PF25865 0.96 88.0 7.90e-01 100.0% 74.5%
4982789 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.95 88.0 7.34e-01 100.0% 70.8%
4025462 4076.1.1.1 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like › Ribosomal_L9_N 0.93 80.0 6.91e-01 100.0% 63.3%
4981952 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.91 84.0 7.80e-01 100.0% 90.0%
4978275 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.90 83.0 7.41e-01 100.0% 87.3%
5035786 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.90 82.0 7.67e-01 100.0% 96.0%
4946969 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.90 81.0 7.49e-01 97.6% 94.0%
4956746 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.90 80.0 7.47e-01 97.6% 94.0%
4935547 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.89 82.0 7.61e-01 100.0% 94.0%
5028408 4076.3.1.5 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.89 79.0 7.36e-01 97.6% 94.0%
4991671 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 80.0 7.43e-01 100.0% 98.0%
4932084 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 80.0 7.49e-01 100.0% 94.0%
3601134 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.88 78.0 6.42e-01 100.0% 57.1%
4939413 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.88 79.0 7.41e-01 100.0% 100.0%
4358525 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.87 80.0 7.45e-01 100.0% 90.0%
5045837 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 78.0 6.85e-01 100.0% 78.3%
5069341 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.87 79.0 7.33e-01 100.0% 94.0%
5063665 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.86 80.0 7.75e-01 100.0% 97.8%
4081421 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.85 78.0 7.25e-01 100.0% 94.0%
4967982 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.85 73.0 7.18e-01 95.1% 97.7%
4230268 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.83 73.0 7.12e-01 97.6% 100.0%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.82 73.0 7.14e-01 100.0% 100.0%
4269273 4076.4.1.1 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain › PriS_C 0.80 70.0 6.78e-01 97.6% 100.0%
3929869 4076.3.1.8 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › PSF2_N 0.80 70.0 6.36e-01 100.0% 85.5%
5083883 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 66.0 6.52e-01 100.0% 93.3%
5009 4076.3.1.2 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › YqbF 0.74 62.0 5.98e-01 100.0% 87.8%
3481344 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 55.0 4.87e-01 100.0% 87.7%
4032281 268.2.1.1 ↗ a+b two layers › Sterol carrier protein-like › LytR-Cps2A-Psr (LCP) enzymes › LytR-Cps2A-Psr (LCP) enzymes › LytR_cpsA_psr 0.66 54.0 3.33e-01 100.0% 20.0%
3957920 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.66 49.0 2.90e-01 82.9% 18.2%
3484478 4.1.1.99 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_10 0.65 55.0 4.94e-01 100.0% 86.7%
3902139 4.1.1.99 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_10 0.65 55.0 4.70e-01 100.0% 75.7%
3868927 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.65 48.0 2.88e-01 82.9% 22.7%
3806748 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.65 48.0 2.87e-01 82.9% 24.6%
3958220 149.1.1.0 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 0.65 48.0 2.96e-01 82.9% 23.1%
3962059 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.64 48.0 2.90e-01 82.9% 23.3%
3327949 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.62 47.0 2.89e-01 85.4% 26.2%
3458496 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.61 43.0 2.56e-01 78.0% 20.0%
3454403 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.61 45.0 2.73e-01 85.4% 22.2%
4931277 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.61 43.0 2.97e-01 78.0% 28.4%
3515342 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.61 45.0 2.70e-01 85.4% 22.5%
3355968 375.1.1.190 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Fra10Ac1 0.60 46.0 3.34e-01 85.4% 30.4%
3752343 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.60 49.0 4.52e-01 95.1% 100.0%
3994204 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.60 44.0 2.59e-01 82.9% 18.6%
3435996 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.60 43.0 2.65e-01 78.0% 27.6%
3258638 4.8.1.28 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Fra10Ac1 0.59 44.0 3.33e-01 82.9% 33.3%
3989505 6051.5.1.0 ↗ alpha duplicates or obligate multimers › Docking domains in modular polyketide synthases › Class 3 N-terminal docking domain › Class 3 N-terminal docking domain 0.58 40.0 3.92e-01 73.2% 86.7%
5012054 310.3.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.57 43.0 3.71e-01 85.4% 84.3%
3784556 101.1.9.15 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › BHD_3 0.57 44.0 3.36e-01 92.7% 51.8%
4397359 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.56 41.0 2.52e-01 85.4% 21.5%
3174687 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.56 43.0 3.73e-01 95.1% 86.7%
3236725 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.56 43.0 2.79e-01 100.0% 53.1%
3782781 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 44.0 4.45e-01 92.7% 95.0%
4432036 2005.1.1.11 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 0.54 41.0 2.62e-01 87.8% 61.7%
4270226 275.1.1.0 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase 0.53 42.0 3.98e-01 100.0% 85.5%
1203936 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 39.0 2.70e-01 85.4% 44.4%
4941480 873.1.1.1 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.53 39.0 2.70e-01 85.4% 51.7%
3958083 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 36.0 2.17e-01 75.6% 15.8%
3507788 11.1.1.76 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › GMP_PDE_delta 0.52 39.0 2.74e-01 90.2% 58.5%
4375742 512.1.1.4 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › FlgI 0.50 38.0 3.37e-01 100.0% 80.8%
4399538 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.50 41.0 3.13e-01 100.0% 92.7%
D2 high residues 80-141
PDB