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MN988530.1__QIG73294.1__EVC02_073__00073

Bact-Vir

MN988530.1__QIG73294.1__EVC02_073__00073

Identity

Accession:
MN988530 ↗
Kingdom:
phage

Quality

86.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kleczkowskavirus› Rhizobium_phage_RHph_N17

TaxID: 2509742

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 2-53
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dk6A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.67 53.0 4.41e-01 88.5% 84.0%
7c2fB01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.66 48.0 4.14e-01 100.0% 47.7%
7wsoA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 56.0 4.83e-01 100.0% 68.2%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.64 53.0 3.87e-01 100.0% 93.4%
1ewqB01 3.40.1170.10 Alpha Beta › 3-Layer(aba) Sandwich › MutS, DNA mismatch repair protein, domain I › DNA repair protein MutS, domain I 0.64 53.0 4.11e-01 94.2% 72.9%
7fh5A01 2.60.120.330 Mainly Beta › Sandwich › Jelly Rolls › B-lactam Antibiotic, Isopenicillin N Synthase; Chain 0.64 46.0 2.91e-01 76.9% 18.6%
7w6zA01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.63 49.0 4.07e-01 100.0% 47.9%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.62 51.0 4.37e-01 100.0% 93.6%
5jtwA03 2.60.40.1940 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 52.0 4.05e-01 100.0% 62.2%
1ab8A00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.61 51.0 3.63e-01 98.1% 80.2%
3vpbB03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.61 54.0 4.21e-01 100.0% 68.8%
1iyjB03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 49.0 3.69e-01 96.2% 38.7%
1hbxA01 3.40.1810.10 Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box 0.60 40.0 3.63e-01 100.0% 49.3%
6ro0F00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.60 36.0 2.92e-01 100.0% 30.6%
4limA00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.59 47.0 2.94e-01 100.0% 73.5%
4bpuC00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.59 47.0 2.94e-01 100.0% 73.8%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.57 43.0 2.99e-01 82.7% 36.9%
1mbyA00 2.40.50.930 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 33.0 2.96e-01 100.0% 36.0%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 47.0 3.33e-01 92.3% 91.7%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.56 40.0 4.10e-01 82.7% 96.0%
3hrzB01 2.20.130.20 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › 0.56 39.0 3.50e-01 75.0% 73.7%
1wu2A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.56 47.0 4.24e-01 100.0% 67.5%
2xhkB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 41.0 3.22e-01 90.4% 35.0%
5oyhD00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.55 44.0 3.20e-01 100.0% 74.6%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.54 41.0 4.04e-01 100.0% 78.7%
3wqbA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 43.0 3.12e-01 94.2% 33.1%
1pqsA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 37.0 3.36e-01 88.5% 50.6%
2wz1B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.53 42.0 3.04e-01 100.0% 73.0%
3v67A01 3.30.450.210 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Two-component sensor protein CpxA, periplasmic domain 0.53 39.0 3.12e-01 84.6% 90.1%
1xvsA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.53 43.0 3.41e-01 100.0% 56.9%
4gxbA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 38.0 3.33e-01 86.5% 49.5%
2b97A00 3.20.120.10 Alpha Beta › Alpha-Beta Barrel › hfbii hydrophobin › Hydrophobin 0.52 43.0 4.02e-01 100.0% 87.1%
6qlyA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 43.0 3.79e-01 98.1% 91.6%
6hj2A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.52 38.0 2.46e-01 82.7% 37.2%
6scxC01 3.90.79.20 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › 0.51 39.0 2.88e-01 92.3% 47.7%
2o3iA01 3.40.1610.10 Alpha Beta › 3-Layer(aba) Sandwich › CV3147-like fold › CV3147-like domain 0.51 40.0 2.75e-01 96.2% 86.0%
2orzA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 43.0 3.17e-01 100.0% 41.6%
3h8hA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 39.0 3.46e-01 96.2% 95.7%
3ou2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 44.0 2.98e-01 98.1% 81.4%
3mlqH00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.51 31.0 3.36e-01 100.0% 73.8%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3272931 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.76 57.0 4.49e-01 100.0% 40.0%
3211717 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 43.0 4.89e-01 73.1% 88.6%
3254632 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.72 50.0 4.63e-01 73.1% 98.5%
3262383 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.69 41.0 3.00e-01 100.0% 23.0%
3916901 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.69 56.0 4.82e-01 96.2% 87.8%
4349826 7.1.1.0 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain 0.67 57.0 4.65e-01 100.0% 51.0%
3927505 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.66 54.0 4.81e-01 96.2% 97.5%
3800967 4357.1.1.0 ↗ beta barrels › WWE domain › WWE domain › WWE domain 0.65 51.0 4.69e-01 88.5% 100.0%
3920703 10.12.1.40 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › JmjC_2 0.65 54.0 3.39e-01 100.0% 22.2%
3742058 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.63 56.0 3.22e-01 100.0% 17.1%
3478442 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.61 45.0 2.85e-01 84.6% 14.7%
4188115 109.4.1.1310 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_TRIP12_N 0.59 40.0 2.26e-01 78.8% 4.7%
5048876 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.59 48.0 4.61e-01 100.0% 92.3%
4304758 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.59 43.0 3.20e-01 82.7% 96.8%
3613380 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.58 47.0 4.07e-01 92.3% 81.2%
3575366 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.58 46.0 3.80e-01 86.5% 63.2%
4025385 2003.1.5.82 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.58 47.0 3.31e-01 92.3% 36.7%
5065027 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.58 39.0 2.89e-01 71.2% 40.0%
4463006 3115.2.1.0 ↗ a+b two layers › GP2-like › GP2 › GP2 0.58 40.0 4.16e-01 75.0% 93.3%
4662939 1077.1.1.1 ↗ few secondary structure elements › RelA zinc-finger domain › RelA zinc-finger domain › RelA zinc-finger domain › RelA_RIS 0.58 41.0 3.80e-01 88.5% 57.1%
4004704 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.58 41.0 4.22e-01 76.9% 91.1%
3968122 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.57 40.0 4.14e-01 75.0% 88.9%
3936814 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.57 43.0 3.54e-01 86.5% 54.3%
3930342 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.57 43.0 4.28e-01 100.0% 85.5%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.56 40.0 4.13e-01 76.9% 91.1%
3817993 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.56 43.0 3.23e-01 82.7% 36.8%
1937230 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.56 47.0 3.32e-01 92.3% 90.0%
5017536 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.56 38.0 4.00e-01 71.2% 95.6%
4242915 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.56 38.0 4.00e-01 71.2% 95.6%
5006516 223.1.1.3 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.55 38.0 2.82e-01 73.1% 70.0%
2325211 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.55 47.0 3.37e-01 100.0% 44.4%
4596504 331.10.2.1 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase › AdoMet_dc 0.55 43.0 3.17e-01 100.0% 91.1%
3971634 304.6.1.0 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain 0.55 47.0 3.34e-01 100.0% 36.3%
4156870 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.55 45.0 3.68e-01 90.4% 55.8%
4226938 331.10.1.2 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase › AdoMet_dc 0.55 44.0 3.05e-01 100.0% 79.1%
5032187 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 36.0 3.62e-01 71.2% 94.5%
3721040 4176.1.1.2 ↗ a/b three-layered sandwiches › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › a/b domain in CV3147-like proteins › S-Me-THD_N 0.54 39.0 2.66e-01 84.6% 20.4%
4451316 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.54 47.0 3.36e-01 98.1% 88.4%
3991455 822.2.1.1 ↗ a+b two layers › GYF/BRK domain-like › BRK domain-like › BRK domain-like › BRK 0.54 36.0 3.65e-01 92.3% 70.9%
4415556 331.10.2.1 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase › AdoMet_dc 0.53 41.0 2.95e-01 100.0% 85.2%
4649438 331.10.1.2 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase › AdoMet_dc 0.52 40.0 2.79e-01 100.0% 78.8%
3973638 331.10.1.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase 0.52 40.0 2.86e-01 100.0% 78.2%
4443054 3115.1.1.9 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › YjeJ 0.51 42.0 3.36e-01 100.0% 72.5%