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MN988516.1__QIG70426.1__EVB88_042__00042

Bact-Vir

MN988516.1__QIG70426.1__EVB88_042__00042

Identity

Accession:
MN988516 ↗
Kingdom:
phage

Quality

79.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHph_N28_2

TaxID: 2509584

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 24-71
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1e3hA03 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.77 54.0 3.48e-01 75.0% 59.6%
1qf6A02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.72 49.0 3.73e-01 70.8% 59.4%
4g3wA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.67 57.0 4.12e-01 95.8% 53.3%
4qdiA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.66 56.0 3.64e-01 100.0% 50.7%
4o89A02 3.30.360.20 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › RNA 3'-terminal phosphate cyclase, insert domain 0.65 53.0 4.39e-01 97.9% 96.8%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 55.0 4.34e-01 100.0% 53.3%
2ywqA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.64 53.0 4.38e-01 93.8% 77.3%
2dcnA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.62 55.0 3.33e-01 100.0% 20.8%
3iq0A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.62 54.0 3.31e-01 100.0% 20.8%
5aykA04 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 46.0 3.72e-01 91.7% 85.3%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.58 50.0 4.28e-01 97.9% 70.1%
3qc7A02 6.10.140.1630 Special › Helix non-globular › Helix Hairpins › 0.57 39.0 3.88e-01 72.9% 80.4%
4kzsA03 3.30.160.710 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 43.0 3.62e-01 100.0% 54.6%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.53 40.0 3.00e-01 91.7% 68.4%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 42.0 2.81e-01 89.6% 29.0%
2e9hA02 2.20.25.350 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.51 35.0 3.64e-01 75.0% 84.1%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4983377 330.2.1.5 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.71 61.0 4.77e-01 100.0% 58.1%
5080980 330.2.1.1 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › Ribosomal_S30AE 0.70 60.0 4.67e-01 100.0% 54.5%
3206115 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.70 61.0 5.41e-01 100.0% 75.7%
3655368 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.70 58.0 5.16e-01 100.0% 72.0%
4031114 221.4.1.1 ↗ a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.68 53.0 3.57e-01 87.5% 55.9%
5067503 218.1.1.2 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.68 57.0 4.35e-01 100.0% 86.4%
5079725 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 51.0 4.78e-01 100.0% 68.3%
3701914 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.61 52.0 4.19e-01 97.9% 85.3%
5019105 2484.1.1.339 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › acVLRF1 0.59 47.0 3.61e-01 97.9% 55.6%
4027687 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.57 49.0 4.74e-01 95.8% 96.4%
3903614 375.1.3.2 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › MRNIP 0.56 44.0 3.99e-01 85.4% 89.2%
4026211 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.56 47.0 4.68e-01 93.8% 100.0%
4475754 4076.2.1.5 ↗ a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like › MRNIP 0.56 44.0 3.95e-01 85.4% 89.2%
1348267 292.2.1.5 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › Polo_box_3 0.56 43.0 3.50e-01 85.4% 82.4%
3845291 220.1.1.119 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Syntrophin_4th 0.52 43.0 2.77e-01 93.8% 24.3%
4126633 386.1.1.75 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › Rua1_C 0.52 39.0 3.61e-01 97.9% 61.1%
3289907 4123.1.1.2 ↗ few secondary structure elements › E7 C-terminal domain-like › E7 C-terminal domain-like › E7 C-terminal domain-like › RepSA 0.52 46.0 3.49e-01 97.9% 82.7%
3233889 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.52 46.0 2.87e-01 100.0% 19.2%