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NC_024149.1__YP_009032587.1__WP2_10__00010

Bact-Vir

NC_024149.1__YP_009032587.1__WP2_10__00010

Identity

Accession:
NC_024149 ↗
Kingdom:
phage

Quality

76.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rountreeviridae› Negarvirus› Lactococcus_phage_WP-2

TaxID: 1486423

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 2-68
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yqfB00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.72 47.0 3.38e-01 98.5% 25.4%
1a9xA06 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.66 50.0 3.53e-01 80.6% 77.8%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.66 53.0 4.00e-01 89.6% 83.7%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.66 44.0 3.41e-01 70.1% 48.7%
3cxgA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 42.0 3.50e-01 74.6% 75.4%
2pvpA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.57 48.0 3.69e-01 91.0% 74.0%
4ckbD03 2.40.50.830 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 49.0 3.92e-01 98.5% 48.5%
4mamB03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.57 51.0 3.66e-01 100.0% 84.0%
4gniA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 50.0 4.63e-01 100.0% 89.7%
2pmaA01 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.56 36.0 3.10e-01 82.1% 37.2%
4h5iB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 49.0 3.13e-01 100.0% 27.5%
3p0cA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 45.0 3.99e-01 98.5% 71.2%
1t6cA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 50.0 4.05e-01 100.0% 81.6%
4nehA01 2.130.10.130 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Integrin alpha, N-terminal 0.55 48.0 3.02e-01 100.0% 51.8%
1fwxA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 47.0 2.91e-01 100.0% 33.0%
2k50A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 37.0 3.31e-01 71.6% 77.9%
8gn6A01 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.55 48.0 3.07e-01 100.0% 31.4%
1dt9A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.54 48.0 4.09e-01 100.0% 65.2%
3i2nA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 48.0 3.05e-01 100.0% 33.3%
2cqaA01 2.40.50.360 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RuvBL1 DNA/RNA binding domain 0.54 37.0 3.65e-01 73.1% 90.5%
2nyyA04 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.53 44.0 3.23e-01 94.0% 82.6%
3mdqA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 45.0 3.79e-01 98.5% 82.1%
3q9oA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 45.0 3.25e-01 100.0% 51.9%
1x6oA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 41.0 3.91e-01 83.6% 100.0%
1hjrA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 45.0 3.50e-01 98.5% 58.9%
4b9gA00 2.60.40.3480 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 41.0 3.31e-01 89.6% 99.3%
4wfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 43.0 3.47e-01 100.0% 47.7%
1u6zA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 44.0 3.67e-01 97.0% 83.3%
4hkqA04 3.10.20.370 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 43.0 4.18e-01 94.0% 96.1%
1kblA06 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 42.0 3.81e-01 97.0% 87.8%
2w59A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.47e-01 85.1% 99.0%
4wyqB00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 34.0 3.35e-01 70.1% 69.3%
1bebA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 41.0 3.31e-01 100.0% 48.7%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3916526 719.1.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › XRCC4, N-terminal domain › XRCC4, N-terminal domain › XRCC4 0.79 45.0 3.56e-01 86.6% 30.0%
3363185 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.70 50.0 3.16e-01 74.6% 20.3%
4011588 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.66 44.0 4.32e-01 70.1% 70.7%
3499810 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.65 49.0 2.86e-01 80.6% 32.8%
1954221 2.26.1.1 ↗ beta barrels › OB-fold › Arcadin-1 › Arcadin-1 › Arcadin_1 0.61 43.0 4.15e-01 73.1% 96.0%
3311424 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.59 51.0 3.27e-01 95.5% 88.1%
3575356 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 46.0 2.94e-01 98.5% 17.8%
4317535 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.58 49.0 3.36e-01 98.5% 47.8%
3294876 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.58 50.0 3.65e-01 100.0% 40.5%
1283692 2.1.1.102 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCEL_GT_OB 0.57 48.0 3.90e-01 98.5% 47.8%
3740435 5.1.4.35 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.57 50.0 3.21e-01 100.0% 33.8%
5032877 5.1.4.665 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › FG-GAP_2 0.57 50.0 3.12e-01 100.0% 33.2%
3710324 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.57 44.0 3.73e-01 83.6% 71.8%
3407108 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 50.0 3.14e-01 100.0% 31.6%
5040009 5.1.3.22 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › GSDH 0.56 50.0 3.19e-01 100.0% 52.8%
3679236 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.56 49.0 2.99e-01 97.0% 16.9%
4222631 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.56 39.0 3.47e-01 73.1% 73.0%
3804501 2484.1.1.165 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 50.0 3.37e-01 100.0% 30.0%
4539356 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.56 49.0 3.12e-01 100.0% 43.5%
3342974 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.56 49.0 4.50e-01 100.0% 87.8%
4888997 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.56 49.0 3.00e-01 98.5% 46.6%
4486741 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 48.0 3.10e-01 100.0% 32.7%
3327232 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.56 49.0 3.22e-01 100.0% 25.6%
3670446 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.56 49.0 3.15e-01 100.0% 28.7%
3223991 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 49.0 3.21e-01 100.0% 33.8%
3683663 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.55 43.0 2.82e-01 100.0% 20.4%
3676186 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.55 47.0 4.43e-01 98.5% 87.1%
3309559 5.1.4.16 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.55 48.0 3.22e-01 100.0% 42.2%
4981502 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 35.0 3.24e-01 98.5% 46.3%
3620841 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 49.0 4.08e-01 100.0% 71.3%
3790212 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 48.0 3.30e-01 100.0% 42.5%
3658860 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 48.0 3.36e-01 100.0% 36.4%
3366268 2484.1.1.279 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RT_RNaseH_2 0.54 45.0 4.36e-01 91.0% 97.3%
3789432 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 48.0 2.88e-01 100.0% 37.9%
3510696 5.1.4.149 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WDR54 0.54 48.0 3.32e-01 100.0% 54.2%
None — 0.53 45.0 2.90e-01 100.0% 19.1%
3990098 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.53 36.0 3.19e-01 71.6% 67.3%
5079413 5.1.3.272 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › SBBP 0.53 47.0 3.15e-01 100.0% 41.5%
3937433 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.53 46.0 3.84e-01 100.0% 76.8%
3704944 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.53 42.0 3.78e-01 91.0% 78.0%
3864913 218.1.1.2 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.53 45.0 3.51e-01 98.5% 78.1%
3889864 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 4.31e-01 83.6% 96.4%
5022726 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.52 35.0 3.82e-01 100.0% 94.0%
3211024 221.13.1.0 ↗ a+b two layers › beta-Grasp › Mitochondrial calcium uniporter N-terminal domain › Mitochondrial calcium uniporter N-terminal domain 0.52 44.0 3.90e-01 98.5% 93.3%
5060548 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 42.0 3.09e-01 100.0% 48.8%
5062495 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 45.0 2.85e-01 100.0% 23.4%
3404941 220.1.1.15 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › BBL5 0.51 41.0 3.23e-01 98.5% 71.8%
3855799 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.50 39.0 3.34e-01 91.0% 49.6%