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OR387861.1__WNI00516.1__vbSpy7_16__00016

Bact-Vir

OR387861.1__WNI00516.1__vbSpy7_16__00016

Identity

Accession:
OR387861 ↗
Kingdom:
phage

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptococcus_phage_vb_Spy_7

TaxID: 3075865

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 77-120
PDB
Domain cluster: rep: MK448993.1__QBX31125.1__Javan616_0032__00026__D60-99
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3c12A01 2.30.30.910 Mainly Beta › Roll › SH3 type barrels. › 0.76 49.0 4.66e-01 95.5% 56.9%
3d1cA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.76 52.0 3.82e-01 81.8% 28.1%
1gv4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.72 46.0 3.10e-01 72.7% 17.5%
4zn0A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.69 50.0 3.41e-01 79.5% 26.2%
3rp7A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.67 50.0 3.38e-01 81.8% 22.0%
4c5wA01 3.30.2020.30 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › 0.67 58.0 4.54e-01 100.0% 96.9%
3awiA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.67 49.0 3.01e-01 79.5% 14.3%
3i6dA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.66 50.0 3.40e-01 81.8% 22.9%
4a9wA00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.66 46.0 2.79e-01 77.3% 51.5%
2dx0B01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.65 48.0 4.14e-01 84.1% 77.3%
1pj5A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.61 43.0 2.75e-01 77.3% 15.8%
1kmdA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 49.0 3.79e-01 100.0% 91.5%
2cmzA03 2.30.29.130 Mainly Beta › Roll › PH-domain like › 0.60 42.0 3.46e-01 77.3% 39.8%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.59 42.0 3.99e-01 81.8% 74.6%
3mazA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.58 45.0 3.63e-01 90.9% 63.6%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.58 42.0 3.65e-01 77.3% 57.5%
3h5aD01 3.90.930.70 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.58 49.0 4.05e-01 100.0% 80.7%
3na2A00 3.40.1570.20 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › 0.57 40.0 3.04e-01 81.8% 87.7%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.57 38.0 3.93e-01 97.7% 79.5%
2j8gA03 2.20.120.10 Mainly Beta › Single Sheet › Multimodular pneumococcal cell wall endolysin, domain 3 › Multimodular pneumococcal cell wall endolysin, domain 3 0.56 38.0 3.55e-01 70.5% 91.4%
3c6kA02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.56 42.0 3.95e-01 97.7% 66.1%
2mnjB00 2.60.40.4160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 42.0 3.49e-01 88.6% 53.4%
2lydA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 40.0 2.97e-01 84.1% 29.9%
4yapA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.54 39.0 2.92e-01 79.5% 61.1%
1di2A00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 45.0 3.99e-01 100.0% 87.0%
2nutA02 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.54 40.0 3.68e-01 84.1% 73.8%
2khjA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 42.0 3.60e-01 100.0% 56.2%
4ojuA00 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.52 47.0 3.24e-01 100.0% 54.9%
1tmoA03 3.90.55.10 Alpha Beta › Alpha-Beta Complex › Dimethylsulfoxide Reductase; domain 3 › Dimethylsulfoxide Reductase, domain 3 0.52 37.0 3.01e-01 77.3% 94.2%
2e9hA01 3.30.30.170 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.52 39.0 3.06e-01 90.9% 61.1%
2l33A00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 44.0 3.55e-01 100.0% 61.5%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4683204 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.78 68.0 5.16e-01 100.0% 47.6%
4986756 206.1.3.9 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Synapsin_C 0.76 54.0 3.23e-01 75.0% 15.6%
3265166 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.74 56.0 5.41e-01 100.0% 74.0%
3291003 2003.1.2.25 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.73 53.0 3.40e-01 77.3% 22.1%
5017637 4.1.1.458 ↗ beta barrels › SH3 › SH3 › SH3 › DUF2098 0.70 44.0 4.10e-01 97.7% 50.9%
3781240 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.69 53.0 3.24e-01 86.4% 96.5%
3990000 4.8.1.5 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › LytTR 0.68 48.0 4.48e-01 75.0% 63.6%
3198039 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.68 47.0 3.76e-01 75.0% 35.1%
5020059 218.4.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Dhaf4260 N-terminal domain › Dhaf4260 N-terminal domain › DUF4213 0.68 59.0 4.54e-01 100.0% 74.0%
4003370 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.67 55.0 4.74e-01 100.0% 57.3%
3973344 2.1.1.63 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › S1_2 0.67 57.0 5.03e-01 100.0% 64.6%
3784980 719.2.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like › GBBH-like_N 0.67 56.0 4.34e-01 100.0% 92.4%
4033493 4.8.1.5 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › LytTR 0.65 48.0 4.44e-01 79.5% 67.3%
4973029 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.65 45.0 4.68e-01 75.0% 85.0%
5001911 5.1.4.87 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › LVIVD 0.65 50.0 3.01e-01 86.4% 86.3%
4061429 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.65 47.0 2.76e-01 79.5% 86.2%
3924808 719.2.1.0 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like 0.64 54.0 4.57e-01 100.0% 95.0%
3989261 4.8.1.5 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › LytTR 0.64 48.0 4.47e-01 81.8% 69.1%
3724813 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.64 46.0 2.83e-01 79.5% 13.8%
4952379 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.63 47.0 2.93e-01 81.8% 66.8%
3936024 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.63 49.0 2.99e-01 88.6% 93.9%
3227103 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.63 50.0 4.33e-01 100.0% 56.2%
4379983 2003.1.10.2 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › Dala_Dala_lig_N 0.62 45.0 3.79e-01 95.5% 45.0%
2442362 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.59 43.0 4.00e-01 84.1% 58.7%
3517149 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.59 48.0 2.90e-01 100.0% 17.1%
4413956 6020.1.1.1 ↗ a+b two layers › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › FtsQ_DivIB_C 0.59 49.0 3.48e-01 100.0% 29.7%
3926886 5.1.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.58 46.0 3.24e-01 97.7% 27.9%
4989647 375.1.1.19 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.58 39.0 3.72e-01 72.7% 58.2%
4957280 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.57 49.0 2.96e-01 100.0% 13.8%
2417924 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.56 45.0 3.86e-01 100.0% 87.1%
3301990 5.1.2.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › WD40 0.56 40.0 3.02e-01 97.7% 29.2%
4527351 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 49.0 2.80e-01 97.7% 18.0%
4958385 4.1.1.13 ↗ beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd 0.56 42.0 4.37e-01 81.8% 95.0%
3542828 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.55 43.0 2.52e-01 100.0% 9.9%
3715951 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.54 45.0 3.27e-01 95.5% 68.0%
3425564 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 47.0 2.64e-01 100.0% 9.3%
3535695 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.53 44.0 3.54e-01 100.0% 78.9%
4028231 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 42.0 2.53e-01 100.0% 15.7%
D2 medium residues 1-67
PDB
Domain cluster: representative