←Back to structures

NC_074762.1__YP_010774576.1__QJ534_gp02__00002

Bact-Vir

NC_074762.1__YP_010774576.1__QJ534_gp02__00002

Identity

Accession:
NC_074762 ↗
Kingdom:
phage

Quality

88.2 mean pLDDT

Taxonomy

Loebvirae› Hofneiviricota› Faserviricetes› Tubulavirales› Inoviridae› Coriovirus› Xanthomonas_phage_XacF1

TaxID: 1463607

Cluster

View cluster (5 members)

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 2-84
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02303.25 best Phage_DNA_bind 120.2 5.10e-35 96.4% 98.8%
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ae2A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.86 80.0 7.97e-01 100.0% 96.5%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.73 59.0 5.99e-01 100.0% 89.0%
2e2dC02 2.40.50.120 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 50.0 4.88e-01 100.0% 93.6%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 51.0 4.58e-01 100.0% 83.5%
6jy5B00 2.40.50.220 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › EutN/Ccml 0.57 46.0 4.64e-01 100.0% 89.0%
2vqeE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.56 36.0 3.96e-01 97.6% 84.4%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 46.0 4.03e-01 95.2% 97.0%
8gjaD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 37.0 2.61e-01 95.2% 21.5%
4bgjA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 45.0 4.07e-01 96.4% 91.5%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 44.0 3.92e-01 96.4% 91.1%
2kigA00 2.30.29.110 Mainly Beta › Roll › PH-domain like › 0.51 43.0 3.47e-01 94.0% 85.7%
2wkcB00 2.40.50.400 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Lactococcus phage single-stranded DNA binding protein 0.50 44.0 4.39e-01 100.0% 93.3%
2i4kA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.50 43.0 3.77e-01 97.6% 96.9%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
376 2.1.1.20 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Phage_DNA_bind 0.86 81.0 7.95e-01 100.0% 95.4%
3258019 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 54.0 4.50e-01 100.0% 60.0%
5030556 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.60 39.0 3.89e-01 97.6% 63.5%
4047115 2.1.1.6 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.60 53.0 5.05e-01 100.0% 93.0%
3194612 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.60 52.0 4.38e-01 100.0% 55.9%
4927342 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 51.0 5.03e-01 100.0% 88.9%
3595817 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 53.0 4.83e-01 100.0% 91.8%
4023930 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.59 38.0 3.91e-01 97.6% 68.8%
4981345 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.58 37.0 4.31e-01 97.6% 98.2%
4886524 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.58 37.0 4.06e-01 97.6% 83.1%
3595183 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 38.0 3.94e-01 98.8% 73.3%
3759486 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.57 39.0 4.04e-01 90.4% 75.0%
3693076 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 46.0 3.83e-01 90.4% 71.3%
3279764 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 41.0 4.40e-01 98.8% 98.6%
3959123 2.1.1.17 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_aCoA_assoc 0.55 44.0 4.18e-01 100.0% 73.3%
3297678 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 32.0 2.90e-01 94.0% 40.9%
3742742 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.54 36.0 3.32e-01 98.8% 50.4%
3564807 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.53 43.0 3.63e-01 94.0% 77.4%
4587235 220.1.1.197 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PF28623 0.53 38.0 3.47e-01 100.0% 55.7%
3903091 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.53 44.0 2.87e-01 94.0% 31.3%
3961460 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 42.0 3.53e-01 100.0% 49.3%
3841771 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.52 43.0 3.62e-01 94.0% 81.3%
4937992 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.52 39.0 4.01e-01 97.6% 85.0%
3894481 277.1.1.5 ↗ a+b two layers › PX domain › PX domain › PX domain › Vps5 0.51 42.0 2.81e-01 94.0% 35.7%
4347716 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.51 34.0 3.28e-01 97.6% 58.9%
5083710 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.50 31.0 2.25e-01 90.4% 18.5%
4838879 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.50 36.0 3.68e-01 95.2% 78.8%