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NC_048679.1__YP_009835529.1__HWB34_gp54__00054

Bact-Vir

NC_048679.1__YP_009835529.1__HWB34_gp54__00054

Identity

Accession:
NC_048679 ↗
Kingdom:
phage

Quality

93.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nylescharonvirus› Leptospira_phage_LE4

TaxID: 2041383

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 10-111
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c4sA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 37.0 4.74e-01 98.0% 91.2%
1fr3A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.66 33.0 4.03e-01 78.4% 73.1%
1azpA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.63 38.0 4.47e-01 91.2% 90.9%
3s6pA03 2.60.270.70 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › 0.63 42.0 3.79e-01 94.1% 49.3%
2lmcB00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.62 31.0 3.90e-01 83.3% 78.7%
1ib8A02 2.30.30.180 Mainly Beta › Roll › SH3 type barrels. › Ribosome maturation factor RimP, C-terminal domain 0.62 35.0 4.13e-01 99.0% 82.1%
1uebA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.61 33.0 4.06e-01 93.1% 84.1%
4rbnA01 3.10.450.330 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 36.0 3.29e-01 75.5% 47.3%
5bncA02 3.20.180.10 Alpha Beta › Alpha-Beta Barrel › Split barrel-like › PNP-oxidase-like 0.59 42.0 4.38e-01 94.1% 80.6%
2fkcA01 3.40.1350.40 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.57 46.0 4.52e-01 94.1% 79.1%
3ovcA01 3.30.200.150 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.56 33.0 3.81e-01 86.3% 81.7%
1fu1A01 2.170.210.10 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal 0.55 42.0 4.05e-01 82.4% 92.4%
2kt4B01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 43.0 3.84e-01 100.0% 59.9%
1xkiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 39.0 3.59e-01 100.0% 58.6%
5bp3B00 3.10.129.110 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase 0.54 40.0 2.99e-01 79.4% 86.5%
2ywqA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.53 36.0 3.85e-01 93.1% 80.7%
2r41A00 3.10.450.150 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › enterococcus faecalis protein 0.53 36.0 3.62e-01 95.1% 68.9%
5kvsA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 38.0 3.27e-01 75.5% 58.0%
1bf3A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 40.0 3.10e-01 81.4% 91.3%
2o1uB01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.52 38.0 3.21e-01 95.1% 46.1%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 40.0 3.85e-01 81.4% 91.4%
1t6lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.52 43.0 3.30e-01 92.2% 96.8%
5z1gB01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.51 37.0 3.02e-01 76.5% 89.7%
6j8yC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.51 43.0 3.20e-01 90.2% 90.6%
3kh8A02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 39.0 3.62e-01 82.4% 93.2%
7szeB02 3.90.380.10 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 0.50 41.0 3.41e-01 89.2% 85.3%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 39.0 2.90e-01 81.4% 94.8%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004981 3335.1.1.0 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B 0.79 33.0 4.08e-01 74.5% 61.5%
4954529 3335.1.1.0 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B 0.77 32.0 4.13e-01 74.5% 66.7%
4955327 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.71 35.0 4.65e-01 92.2% 89.1%
5014688 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.68 32.0 4.25e-01 74.5% 83.6%
5016920 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.67 37.0 4.15e-01 84.3% 69.2%
5074419 512.1.1.1 ↗ 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) › PmbA_TldD_1st 0.66 33.0 4.03e-01 88.2% 73.8%
4983766 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.65 37.0 3.52e-01 84.3% 47.1%
4581970 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.64 36.0 3.35e-01 84.3% 42.1%
3633647 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.64 36.0 4.31e-01 78.4% 84.6%
3280978 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.63 33.0 3.91e-01 90.2% 74.3%
3514660 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.62 32.0 3.42e-01 80.4% 56.7%
3781450 220.1.1.95 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › VID27_PH 0.61 41.0 3.77e-01 96.1% 53.1%
3507003 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 40.0 4.47e-01 100.0% 90.7%
4987937 2.4.1.1 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.60 35.0 3.33e-01 83.3% 46.4%
3286982 330.6.1.0 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain 0.59 34.0 3.43e-01 89.2% 54.8%
3825119 3270.1.1.0 ↗ a+b two layers › a+b domain in heme oxygenase › a+b domain in heme oxygenase › a+b domain in heme oxygenase 0.59 43.0 4.61e-01 96.1% 87.8%
3479661 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 36.0 3.51e-01 76.5% 57.3%
3615642 512.1.1.0 ↗ 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) 0.57 31.0 3.73e-01 91.2% 81.5%
3742908 4075.1.1.2 ↗ a+b complex topology › RGC domain › RGC domain › RGC domain › PF29130 0.57 46.0 4.78e-01 99.0% 95.8%
4967348 814.1.1.0 ↗ a+b two layers › Chorismate lyase › Chorismate lyase › Chorismate lyase 0.57 42.0 4.10e-01 78.4% 98.2%
5049477 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.57 29.0 3.72e-01 93.1% 85.0%
3337354 719.1.1.0 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain 0.55 46.0 4.27e-01 91.2% 93.8%
4014194 4075.1.1.0 ↗ a+b complex topology › RGC domain › RGC domain › RGC domain 0.55 46.0 4.70e-01 100.0% 95.0%
5028385 316.1.1.18 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › AbiEii 0.55 38.0 3.01e-01 70.6% 41.6%
3625037 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.55 39.0 3.56e-01 74.5% 93.3%
3606639 9.5.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Hypothetical protein TT1927B › Hypothetical protein TT1927B › YceI 0.54 40.0 3.33e-01 79.4% 70.3%
3721374 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.54 37.0 3.80e-01 87.3% 73.0%
3789625 227.1.1.0 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.53 39.0 3.59e-01 77.5% 93.3%
3507499 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.53 38.0 3.47e-01 74.5% 94.8%
4215371 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.53 35.0 3.72e-01 84.3% 75.6%
3549045 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 34.0 3.36e-01 76.5% 60.0%
3493361 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.53 40.0 3.83e-01 98.0% 68.3%
4990115 318.1.1.0 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 0.52 34.0 3.63e-01 88.2% 75.6%
3588292 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.52 38.0 3.51e-01 78.4% 57.1%
1924009 227.1.1.10 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_PAP 0.52 43.0 3.95e-01 89.2% 94.7%
5029787 227.1.1.6 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_C 0.52 37.0 3.55e-01 74.5% 96.7%
5023031 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.51 42.0 3.96e-01 89.2% 96.8%
3408101 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.51 40.0 3.70e-01 86.3% 85.9%