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NC_047925.1__YP_009798341.1__HOS79_gp088__00121

Bact-Vir

NC_047925.1__YP_009798341.1__HOS79_gp088__00121

Identity

Accession:
NC_047925 ↗
Kingdom:
phage

Quality

83.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Lenusvirus› Lactobacillus_phage_Nyseid

TaxID: 2079432

Cluster

View cluster (42 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 5-46
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4tn3A01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.57 38.0 3.88e-01 100.0% 72.5%
2o6cA00 2.60.40.2480 Mainly Beta › Sandwich › Immunoglobulin-like › Periplasmic metal-binding protein Tp34-type 0.52 39.0 2.80e-01 90.5% 62.0%
2ff4A03 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.52 43.0 3.39e-01 100.0% 90.8%
2enyA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 41.0 3.28e-01 100.0% 43.3%
4ap5A01 3.40.50.11340 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 38.0 2.58e-01 88.1% 71.5%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3682679 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.60 41.0 2.37e-01 73.8% 29.8%
3426375 376.1.1.40 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_11 0.56 42.0 4.29e-01 88.1% 97.5%
3837543 2498.1.1.51 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › DA1-like 0.55 42.0 2.71e-01 88.1% 60.8%
5069246 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.53 41.0 3.95e-01 85.7% 80.0%
3269676 377.1.1.20 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Vps39_2 0.53 37.0 3.81e-01 83.3% 92.5%
3170384 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.52 37.0 3.41e-01 78.6% 55.0%
4391878 1.1.7.88 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF25963 0.51 37.0 2.66e-01 85.7% 70.3%
3706303 7556.1.1.1 ↗ a/b three-layered sandwiches › Fe-only hydrogenase › Fe-only hydrogenase › Fe-only hydrogenase › Fe_hyd_lg_C 0.50 36.0 2.24e-01 100.0% 76.1%
D2 high residues 53-114
PDB
Domain cluster: rep: MK448710.1__QBX16110.1__Javan233_0030__00030__D34-99
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2p84A02 2.30.30.290 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.88 77.0 7.19e-01 100.0% 78.1%
1m1gB03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.66 55.0 5.50e-01 88.7% 88.9%
1txqA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.66 55.0 5.17e-01 90.3% 100.0%
3be3A00 2.30.30.320 Mainly Beta › Roll › SH3 type barrels. › DUF1653-like domain 0.65 52.0 4.93e-01 90.3% 93.4%
4gr5C01 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.64 33.0 3.34e-01 87.1% 48.4%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.62 49.0 4.78e-01 88.7% 87.1%
1ixdA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.61 55.0 4.61e-01 100.0% 76.9%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.59 51.0 4.91e-01 95.2% 94.2%
2bf6A02 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.58 45.0 4.40e-01 82.3% 87.9%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.58 43.0 4.36e-01 83.9% 100.0%
3plsA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 38.0 3.27e-01 71.0% 78.8%
3isxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.56 49.0 4.38e-01 96.8% 100.0%
4msxA02 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.55 46.0 3.06e-01 100.0% 37.4%
3vpyA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.55 44.0 3.43e-01 91.9% 76.6%
3rd4B00 2.40.50.660 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 38.0 3.47e-01 74.2% 97.6%
5i4nA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 36.0 3.24e-01 71.0% 88.0%
2x9aA00 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.53 31.0 3.20e-01 74.2% 57.4%
1pcfA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.52 32.0 3.15e-01 72.6% 56.1%
1p1hB01 3.30.2360.10 Alpha Beta › 2-Layer Sandwich › Glyceraldehyde-3-phosphate dehydrogenase-like fold › Glyceraldehyde-3-phosphate dehydrogenase-like domain 0.52 42.0 3.12e-01 93.5% 90.9%
2kigA00 2.30.29.110 Mainly Beta › Roll › PH-domain like › 0.51 40.0 3.02e-01 87.1% 59.0%
1vq8300 3.10.450.80 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 43.0 3.77e-01 91.9% 100.0%
3a9gA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 37.0 2.42e-01 80.6% 31.7%
6oqrA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.51 45.0 4.00e-01 100.0% 75.6%
6mlyB01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 40.0 2.75e-01 91.9% 87.4%
1qhlA00 3.40.1140.10 Alpha Beta › 3-Layer(aba) Sandwich › N-terminal domain of mukB › 0.51 40.0 2.85e-01 88.7% 97.5%
3uc2A00 2.60.40.3340 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4426 0.50 37.0 3.07e-01 82.3% 93.5%
5ek8A01 2.60.40.3330 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 36.0 2.99e-01 80.6% 84.1%
3wasA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.50 39.0 2.46e-01 88.7% 68.6%
2h1eA02 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 35.0 3.65e-01 74.2% 100.0%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4012945 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 61.0 5.72e-01 93.5% 100.0%
3974170 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 58.0 4.89e-01 90.3% 72.0%
4851967 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.63 51.0 5.10e-01 88.7% 98.4%
578 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.62 53.0 4.15e-01 93.5% 58.6%
3863963 220.1.1.2 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › WH1 0.61 49.0 3.89e-01 87.1% 76.0%
4977206 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 49.0 4.97e-01 98.4% 90.0%
3514191 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 53.0 4.53e-01 98.4% 77.0%
4992847 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.60 41.0 3.82e-01 72.6% 58.7%
3267504 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.57 42.0 2.49e-01 79.0% 17.8%
4606362 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.57 39.0 3.55e-01 72.6% 55.3%
3170622 2004.1.1.199 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23,SbcC_Walker_B 0.57 45.0 2.51e-01 88.7% 90.3%
3185924 73.1.1.1 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain › FHA 0.56 45.0 3.41e-01 91.9% 68.3%
3811020 376.1.2.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain 0.55 44.0 3.85e-01 91.9% 78.0%
3802472 5.1.3.144 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › b-prop_At3g26010-like 0.54 44.0 2.82e-01 88.7% 92.5%
3735485 5.1.4.143 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF6454 0.54 42.0 2.68e-01 85.5% 76.6%
3730094 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.54 38.0 2.37e-01 74.2% 94.9%
4682079 4.6.1.6 ↗ beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › PRC_RimM 0.54 44.0 4.11e-01 98.4% 84.7%
3516513 109.2.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid 0.54 40.0 2.28e-01 83.9% 93.0%
3365669 2.1.1.229 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30940 0.53 37.0 3.10e-01 74.2% 89.1%
3718707 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.52 41.0 2.46e-01 90.3% 94.2%
4961667 5084.1.1.45 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › PF26421 0.52 39.0 3.27e-01 83.9% 65.2%
2135304 11.1.1.166 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › FctA 0.52 41.0 3.38e-01 90.3% 87.7%
3402677 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.52 40.0 4.14e-01 100.0% 89.7%
3804708 5.1.3.65 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF295 0.52 43.0 2.79e-01 95.2% 79.3%
4980165 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 43.0 2.62e-01 95.2% 92.9%
4986643 2484.1.1.148 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_5 0.51 37.0 2.34e-01 77.4% 17.4%
1146564 11.1.1.183 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF4426 0.51 36.0 3.10e-01 80.6% 92.5%
3559952 71.2.1.4 ↗ beta meanders › Lipoprotein localization factors LolAB › PA1994-like › PA1994-like › CATIP_N 0.51 39.0 2.72e-01 88.7% 88.7%
3174953 69.1.1.2 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint › Hom_end_hint 0.51 41.0 2.82e-01 91.9% 96.1%
4672378 71.1.1.1 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Ependymin 0.51 39.0 2.95e-01 91.9% 88.1%
3442564 252.1.1.0 ↗ a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD 0.50 36.0 3.78e-01 75.8% 85.5%