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NC_023502.1__YP_009003329.1__CC53_gp172__00172

Bact-Vir

NC_023502.1__YP_009003329.1__CC53_gp172__00172

Identity

Accession:
NC_023502 ↗
Kingdom:
phage

Quality

88.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_vB_RleS_L338C

TaxID: 1414737

Cluster

View cluster (10 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 medium residues 12-40_115-140
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d6wB02 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.64 42.0 4.59e-01 96.4% 97.4%
1jv2B04 4.10.1240.30 Few Secondary Structures › Irregular › Hormone receptor fold › 0.64 41.0 3.62e-01 85.5% 43.0%
8hpoK01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 52.0 3.13e-01 96.4% 15.5%
1wmvA01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.61 31.0 3.79e-01 70.9% 100.0%
2ciuA00 3.10.450.320 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Mitochondrial import inner membrane translocase subunit Tim21 0.60 40.0 3.12e-01 78.2% 30.9%
2ysiA01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.59 32.0 3.66e-01 74.5% 75.8%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.57 37.0 3.45e-01 87.3% 52.1%
8dajA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 41.0 2.61e-01 81.8% 23.2%
4fdtB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.54 38.0 2.28e-01 80.0% 10.4%
4ns4A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 38.0 2.51e-01 83.6% 23.6%
3vhxF00 2.60.40.4330 Mainly Beta › Sandwich › Immunoglobulin-like › Kinesin-like protein Kif23, Arf6-interacting domain 0.50 36.0 2.96e-01 76.4% 42.2%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1481894 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.57 40.0 3.52e-01 78.2% 76.7%
4206222 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.56 45.0 4.27e-01 92.7% 75.0%
4235787 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.56 44.0 4.34e-01 92.7% 86.7%
3961142 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.55 39.0 2.44e-01 76.4% 68.7%
4076818 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.55 43.0 4.25e-01 92.7% 85.0%
4044503 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.54 42.0 4.15e-01 90.9% 83.3%
5070757 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 40.0 3.54e-01 96.4% 55.0%
4028592 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.54 43.0 4.23e-01 94.5% 91.7%
3587162 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 43.0 3.28e-01 100.0% 37.9%
3794522 2488.1.1.7 ↗ a/b three-layered sandwiches › alpha/beta knot › alpha/beta knot › alpha/beta knot › EMG1 0.52 44.0 3.31e-01 100.0% 64.0%
4546214 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.52 41.0 4.05e-01 92.7% 86.7%
4593775 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.51 40.0 3.95e-01 94.5% 84.4%
4037769 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.51 41.0 4.06e-01 94.5% 90.0%
3933016 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.51 44.0 2.81e-01 100.0% 59.7%
1943596 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.51 40.0 3.73e-01 92.7% 70.8%
3661299 4281.1.1.1 ↗ a+b two layers › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal protein L35p › Ribosomal_L35p 0.50 38.0 3.77e-01 89.1% 85.0%
D2 medium residues 41-114
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vk1A01 3.90.1530.10 Alpha Beta › Alpha-Beta Complex › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain 0.78 72.0 6.38e-01 100.0% 72.5%
1xw3A01 3.90.1530.10 Alpha Beta › Alpha-Beta Complex › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain 0.77 71.0 6.49e-01 100.0% 82.3%
1vz0A01 3.90.1530.30 Alpha Beta › Alpha-Beta Complex › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain › 0.75 53.0 5.65e-01 73.0% 88.9%
2hwjA01 3.90.1530.10 Alpha Beta › Alpha-Beta Complex › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, ParB domain 0.71 65.0 5.38e-01 100.0% 61.1%
4y7uA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.55 39.0 2.84e-01 75.7% 52.2%
3ds8A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 44.0 3.15e-01 94.6% 28.1%
3wisA00 3.40.50.1950 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavin prenyltransferase-like 0.54 38.0 2.98e-01 77.0% 33.3%
2jynA01 1.10.3560.10 Mainly Alpha › Orthogonal Bundle › yst0336 like fold › yst0336 like domain 0.54 42.0 3.51e-01 87.8% 82.4%
4pr3A00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.52 37.0 2.82e-01 77.0% 64.4%
1o5yA00 3.10.690.10 Alpha Beta › Roll › Bifunctional nuclease domain › Bifunctional nuclease domain 0.52 44.0 3.68e-01 100.0% 90.2%
1zpdA02 3.40.50.1220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain 0.51 34.0 2.79e-01 70.3% 94.5%
3pmmA00 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.50 38.0 2.49e-01 85.1% 95.5%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4931651 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.80 72.0 6.54e-01 100.0% 74.7%
2543651 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.79 74.0 6.87e-01 100.0% 84.3%
3602844 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.78 72.0 6.01e-01 100.0% 60.8%
3772471 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.77 71.0 6.66e-01 100.0% 87.8%
2061501 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.76 71.0 6.35e-01 100.0% 74.7%
85732 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.76 70.0 5.87e-01 100.0% 65.3%
4930273 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.76 69.0 5.27e-01 100.0% 98.8%
3960934 876.1.1.8 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › VapB 0.76 66.0 6.44e-01 100.0% 86.3%
5083737 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.76 69.0 5.40e-01 100.0% 88.7%
3988408 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.76 69.0 6.96e-01 98.6% 97.3%
5073612 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.76 70.0 6.14e-01 100.0% 75.2%
4929132 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.75 70.0 6.37e-01 100.0% 85.3%
4927766 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.75 70.0 6.66e-01 100.0% 88.2%
4984325 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.75 65.0 4.99e-01 95.9% 43.8%
5049279 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.74 68.0 6.14e-01 100.0% 87.0%
4970064 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.74 69.0 6.74e-01 100.0% 96.2%
3278076 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.74 68.0 6.31e-01 100.0% 84.4%
2387795 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.74 66.0 6.27e-01 100.0% 83.9%
3945776 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.74 69.0 6.25e-01 100.0% 80.0%
3992892 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.74 67.0 6.59e-01 100.0% 95.0%
2710114 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.74 68.0 6.23e-01 100.0% 82.8%
3587492 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.73 68.0 6.08e-01 100.0% 77.0%
4928673 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.73 68.0 6.66e-01 100.0% 93.8%
3247083 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.73 67.0 5.64e-01 100.0% 63.3%
4946472 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.73 68.0 6.60e-01 100.0% 96.2%
4931684 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.73 65.0 4.93e-01 100.0% 65.7%
4862436 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.72 66.0 6.08e-01 100.0% 87.4%
5032171 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.72 66.0 6.25e-01 98.6% 84.7%
2841795 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.72 67.0 6.22e-01 100.0% 83.3%
4931704 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.72 64.0 4.77e-01 100.0% 91.5%
3971842 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.72 66.0 5.41e-01 100.0% 63.8%
3966817 876.1.1.2 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc_2 0.72 64.0 6.13e-01 98.6% 96.5%
3279590 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.72 65.0 5.44e-01 100.0% 94.4%
7603 876.1.1.2 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc_2 0.71 65.0 6.16e-01 100.0% 89.5%
4932240 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.71 63.0 4.65e-01 100.0% 82.0%
3942579 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.71 63.0 6.31e-01 95.9% 96.0%
4393138 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.70 63.0 5.36e-01 100.0% 69.2%
3948471 876.1.1.1 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParBc 0.69 62.0 5.37e-01 100.0% 73.9%
4930140 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.69 62.0 4.53e-01 100.0% 71.7%
1409395 876.1.1.3 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › PFIN 0.69 60.0 4.53e-01 100.0% 51.1%
3506049 876.1.1.0 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin 0.68 58.0 5.06e-01 95.9% 63.5%
5018770 876.1.1.4 ↗ a+b complex topology › ParB/Sulfiredoxin › ParB/Sulfiredoxin › ParB/Sulfiredoxin › DUF262 0.68 60.0 5.03e-01 98.6% 74.4%
3287561 4107.1.1.1 ↗ alpha arrays › Jann2411-like › Jann2411-like › Jann2411-like › ABATE,zf-CGNR 0.59 43.0 3.37e-01 78.4% 72.1%
3446982 243.1.1.2 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › NTF2 0.55 39.0 3.23e-01 75.7% 88.1%
3347330 802.1.1.1 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 › BFN_dom 0.52 45.0 3.53e-01 98.6% 96.5%
3482245 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.50 34.0 2.79e-01 70.3% 92.0%