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NC_070966.1__YP_010670942.1__PQC16_gp157__00157

Bact-Vir

NC_070966.1__YP_010670942.1__PQC16_gp157__00157

Identity

Accession:
NC_070966 ↗
Kingdom:
phage

Quality

73.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kleczkowskaviridae› Cuauhnahuacvirus› Rhizobium_phage_RHph_TM30

TaxID: 2509764

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 19-61
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yk9A00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.77 65.0 4.31e-01 100.0% 54.9%
2jveA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.76 63.0 5.40e-01 100.0% 57.7%
3dfeA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.75 62.0 5.16e-01 100.0% 85.4%
2cz4A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.73 61.0 4.76e-01 100.0% 82.8%
4mz0B05 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.72 62.0 5.43e-01 100.0% 94.0%
4qbuA03 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.71 61.0 5.34e-01 100.0% 100.0%
5zctA02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.70 57.0 5.13e-01 100.0% 65.2%
5d4nC00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.69 55.0 4.48e-01 100.0% 80.6%
1g6gB00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.65 54.0 4.02e-01 100.0% 93.5%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.65 54.0 4.48e-01 100.0% 65.9%
2xwpA01 3.40.50.1400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 46.0 3.39e-01 83.7% 82.8%
2h5eA03 3.30.70.3280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptide chain release factor 3, domain III 0.61 48.0 3.60e-01 100.0% 47.4%
3tqtA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.61 47.0 4.32e-01 100.0% 63.2%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 48.0 3.41e-01 100.0% 73.9%
1ewxA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 44.0 3.15e-01 88.4% 27.8%
1mw7A02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.58 45.0 3.88e-01 100.0% 51.7%
1rh8A00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.58 47.0 3.42e-01 100.0% 43.7%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.57 41.0 3.85e-01 100.0% 62.3%
3jr7A02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.55 41.0 4.17e-01 100.0% 100.0%
3glkA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.55 41.0 3.95e-01 100.0% 69.5%
2y8yA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.55 41.0 3.06e-01 83.7% 45.2%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 39.0 3.45e-01 100.0% 49.4%
1wmhA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 37.0 3.29e-01 100.0% 47.0%
2bkfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 37.0 3.27e-01 100.0% 45.8%
2a8eA00 3.30.930.20 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Protein of unknown function DUF1054 0.52 38.0 2.66e-01 100.0% 20.0%
1xkiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 40.0 3.06e-01 100.0% 94.5%
3t34A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 40.0 2.47e-01 100.0% 12.8%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3595127 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.81 72.0 6.10e-01 100.0% 100.0%
3510118 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.80 67.0 6.24e-01 100.0% 74.5%
3958896 4187.2.1.0 ↗ a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.73 61.0 5.57e-01 100.0% 73.3%
4991257 304.139.1.1 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › DevR 0.72 59.0 3.61e-01 100.0% 14.4%
4207617 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.71 61.0 5.24e-01 100.0% 92.9%
4090279 304.36.1.1 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.68 54.0 4.56e-01 100.0% 96.5%
4963 4012.1.1.1 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase › TOPRIM_C 0.68 53.0 5.34e-01 100.0% 95.3%
4105022 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.67 56.0 4.53e-01 100.0% 81.1%
3964707 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.66 51.0 3.30e-01 100.0% 17.0%
4100238 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.66 53.0 3.98e-01 100.0% 96.2%
4167213 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.66 53.0 4.25e-01 100.0% 86.0%
3611587 4342.1.1.0 ↗ alpha complex topology › Tex N-terminal region-like › Tex N-terminal region-like › Tex N-terminal region-like 0.65 56.0 3.59e-01 100.0% 20.9%
4399086 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.65 53.0 4.46e-01 100.0% 84.7%
4950851 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 52.0 5.21e-01 95.3% 95.6%
4188115 109.4.1.1310 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_TRIP12_N 0.65 45.0 2.49e-01 79.1% 6.3%
3790328 2003.1.5.13 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.64 49.0 2.97e-01 83.7% 19.8%
3281602 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.64 53.0 5.17e-01 100.0% 89.6%
4394754 304.5.1.7 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.63 51.0 4.22e-01 100.0% 75.6%
5005349 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 51.0 2.99e-01 100.0% 12.2%
3597641 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 0.63 51.0 4.42e-01 100.0% 98.7%
4646775 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.62 50.0 4.38e-01 100.0% 84.0%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.61 51.0 4.94e-01 100.0% 92.0%
3312666 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.60 50.0 4.39e-01 100.0% 67.1%
3479367 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.60 50.0 4.49e-01 100.0% 67.2%
3376733 304.9.1.47 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF4283 0.60 46.0 3.69e-01 100.0% 64.5%
3592902 11.1.1.13 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Motile_Sperm 0.59 42.0 2.94e-01 74.4% 86.9%
3715452 11.1.1.13 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Motile_Sperm 0.59 42.0 2.99e-01 76.7% 88.6%
4635441 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 45.0 3.74e-01 100.0% 85.3%
3737383 708.1.1.10 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › SWI-SNF_Ssr4_N 0.58 43.0 3.08e-01 90.7% 73.8%
3681293 304.48.1.45 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Helitron_like_N 0.57 43.0 3.15e-01 88.4% 46.7%
None — 0.56 41.0 2.51e-01 90.7% 42.3%
3689809 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 42.0 4.23e-01 100.0% 91.1%
3701633 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 41.0 3.58e-01 100.0% 69.4%
3651681 12.1.1.47 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › ISOA1-3_C 0.53 38.0 2.92e-01 79.1% 88.6%
3257012 229.1.1.1 ↗ a+b two layers › Cdc48 domain 2-like › Cdc48 domain 2-like › Cdc48 domain 2-like › CDC48_2 0.52 41.0 3.28e-01 90.7% 84.2%