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NC_048777.1__YP_009847642.1__HWC33_gp14__00014

Bact-Vir

NC_048777.1__YP_009847642.1__HWC33_gp14__00014

Identity

Accession:
NC_048777 ↗
Kingdom:
phage

Quality

80.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Tinytimothyvirus› Microbacterium_phage_TinyTimothy

TaxID: 2583039

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 2-41
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nuhB02 3.30.300.370 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.83 73.0 5.14e-01 100.0% 93.4%
3ce8A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.81 70.0 5.40e-01 100.0% 89.9%
2krxA01 3.90.940.40 Alpha Beta › Alpha-Beta Complex › Eukaryotic RPB6 RNA polymerase subunit › Protein CHLORORESPIRATORY REDUCTION 7 0.78 66.0 5.54e-01 100.0% 100.0%
2nydA02 2.20.28.300 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.77 55.0 5.53e-01 100.0% 78.0%
3znuA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.67 56.0 4.38e-01 100.0% 88.3%
1t4aA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.65 54.0 4.35e-01 95.0% 100.0%
3nrbB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.65 55.0 4.41e-01 100.0% 95.2%
3fysA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.64 49.0 3.48e-01 100.0% 24.8%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 47.0 3.73e-01 82.5% 41.6%
3n6xA03 3.30.1490.270 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.62 47.0 4.35e-01 87.5% 71.4%
1x4rA01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.62 52.0 4.28e-01 100.0% 79.7%
1pqsA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.62 49.0 4.21e-01 100.0% 51.9%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.61 51.0 4.53e-01 100.0% 79.4%
3n0vA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.61 52.0 4.18e-01 100.0% 95.2%
2vvfA01 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.61 52.0 3.61e-01 100.0% 73.8%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 46.0 3.32e-01 100.0% 25.5%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.60 47.0 3.32e-01 92.5% 27.7%
3glkA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.60 48.0 4.40e-01 100.0% 69.5%
3jr7A02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.60 49.0 5.03e-01 100.0% 100.0%
6cngA02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.59 49.0 5.01e-01 100.0% 100.0%
3rbsA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 47.0 3.81e-01 100.0% 50.0%
2ej8B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 40.0 2.97e-01 77.5% 29.8%
4x9xA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 43.0 3.13e-01 100.0% 24.8%
3fdjA02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.57 46.0 4.69e-01 100.0% 100.0%
3kdrA03 3.30.1120.70 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.57 42.0 3.96e-01 80.0% 86.0%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 43.0 3.69e-01 100.0% 92.9%
2cpcA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 44.0 3.63e-01 100.0% 52.9%
2g9oA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 44.0 3.74e-01 100.0% 94.8%
3bf4A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 39.0 3.21e-01 90.0% 96.0%
5yl1A01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 40.0 2.77e-01 92.5% 69.6%
1vz8A02 3.10.20.340 Alpha Beta › Roll › Ubiquitin-like (UB roll) › ArgJ beta chain, C-terminal domain 0.50 42.0 3.13e-01 97.5% 83.0%
2qmwA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.50 39.0 3.19e-01 97.5% 55.9%
ECOD (21)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4321822 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.81 70.0 5.60e-01 100.0% 82.5%
3738773 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.75 66.0 5.93e-01 100.0% 76.4%
5083953 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.74 62.0 5.07e-01 100.0% 81.2%
None — 0.71 55.0 3.16e-01 87.5% 43.6%
3535768 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.71 57.0 4.45e-01 100.0% 40.0%
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 0.70 60.0 5.94e-01 100.0% 95.3%
3477897 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.70 55.0 4.41e-01 95.0% 90.0%
3969151 304.14.1.1 ↗ a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR 0.68 54.0 4.54e-01 100.0% 93.8%
3534502 109.4.1.1310 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_TRIP12_N 0.67 52.0 2.81e-01 85.0% 19.6%
3252771 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.66 55.0 4.44e-01 100.0% 67.1%
3801584 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.66 52.0 4.06e-01 100.0% 38.0%
4331897 235.1.1.41 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › TraH_2 0.64 46.0 3.19e-01 80.0% 64.7%
1937230 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.61 46.0 3.30e-01 100.0% 25.0%
3529839 386.1.1.257 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_Z280C_D 0.61 45.0 4.55e-01 100.0% 95.0%
3213885 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.60 48.0 3.73e-01 100.0% 55.2%
3738248 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.59 45.0 3.90e-01 100.0% 50.7%
3483496 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.58 43.0 4.29e-01 100.0% 82.2%
3964745 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 43.0 3.57e-01 85.0% 98.8%
3174459 2484.3.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Creatinase/prolidase N-terminal domain › Creatinase/prolidase N-terminal domain 0.57 42.0 3.59e-01 80.0% 90.8%
169095 2007.2.1.5 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › Flavodoxin_4 0.54 41.0 2.89e-01 85.0% 22.5%
4981878 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.51 38.0 3.40e-01 100.0% 54.3%