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NC_023502.1__YP_009003255.1__CC53_gp098__00098

Bact-Vir

NC_023502.1__YP_009003255.1__CC53_gp098__00098

Identity

Accession:
NC_023502 ↗
Kingdom:
phage

Quality

95.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_vB_RleS_L338C

TaxID: 1414737

Cluster

View cluster (3 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 3-65
PDB
Domain cluster: rep: OQ504961.1__WID42111.1__X__00049__D4-58
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1mhxA00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.72 49.0 4.94e-01 71.4% 81.5%
3zm6A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.66 45.0 3.09e-01 71.4% 87.9%
7u7nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 45.0 3.92e-01 77.8% 75.3%
1y6kR01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 46.0 4.02e-01 82.5% 70.6%
5e55B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 45.0 3.97e-01 79.4% 77.4%
7y8sB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 43.0 3.94e-01 79.4% 77.0%
2dm4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 44.0 3.93e-01 82.5% 73.4%
2jllA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 44.0 3.87e-01 82.5% 71.4%
4lsdF00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 43.0 3.81e-01 82.5% 69.4%
2aehA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.58 48.0 4.27e-01 96.8% 90.6%
2v5yA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 44.0 3.89e-01 84.1% 72.6%
3wcyA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 44.0 4.02e-01 84.1% 75.6%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.57 38.0 3.43e-01 71.4% 52.1%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 46.0 4.05e-01 100.0% 74.3%
2knrA00 3.40.1530.20 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1805 › Protein of unknown function (DUF1491) 0.56 45.0 3.82e-01 95.2% 78.8%
3r8qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 42.0 3.78e-01 82.5% 73.3%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.56 38.0 3.62e-01 71.4% 67.5%
1c4pC00 3.10.20.180 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 38.0 3.12e-01 73.0% 87.1%
2n1kA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 41.0 3.53e-01 82.5% 62.3%
5ja1B00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.55 41.0 4.05e-01 81.0% 90.9%
2ic2A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 41.0 3.51e-01 81.0% 80.8%
1tdqA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 41.0 3.70e-01 82.5% 78.9%
2dn7A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 41.0 3.54e-01 84.1% 64.5%
2edyA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 40.0 3.49e-01 82.5% 69.9%
2je8A01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.54 38.0 2.75e-01 74.6% 29.7%
3flkA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.53 43.0 2.74e-01 92.1% 54.6%
4zchA01 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.53 44.0 3.65e-01 100.0% 84.6%
8bxrA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 43.0 3.93e-01 100.0% 67.8%
1gpwD00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.52 42.0 3.04e-01 93.7% 100.0%
2oyzA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 43.0 3.89e-01 100.0% 85.1%
1vj2A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 43.0 3.69e-01 100.0% 74.6%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.52 36.0 3.42e-01 73.0% 93.3%
4l8nA03 3.30.160.670 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 40.0 3.06e-01 88.9% 84.1%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.52 40.0 3.30e-01 84.1% 49.6%
6rpxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 42.0 3.87e-01 100.0% 69.4%
3i3lA02 3.30.390.160 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.51 37.0 3.02e-01 77.8% 72.8%
6a48A01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 41.0 3.31e-01 98.4% 84.2%
3gldA02 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.51 43.0 3.45e-01 100.0% 93.4%
4ushA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 40.0 3.54e-01 93.7% 81.6%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3940328 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.64 49.0 4.06e-01 82.5% 73.6%
3375878 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.63 43.0 4.09e-01 71.4% 96.0%
3577849 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.62 48.0 4.14e-01 84.1% 76.0%
3850966 3346.1.1.1 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › UfSP2_N 0.62 50.0 3.37e-01 90.5% 52.4%
5011747 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.58 46.0 4.18e-01 90.5% 78.9%
5018298 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.58 47.0 3.89e-01 90.5% 75.7%
3406851 11.1.1.239 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › MG3 0.58 43.0 3.78e-01 81.0% 77.9%
3773645 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 43.0 3.65e-01 82.5% 70.0%
3738589 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.57 48.0 4.12e-01 96.8% 82.9%
3935630 3346.1.1.0 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 0.57 45.0 3.23e-01 90.5% 51.7%
3548645 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 42.0 3.65e-01 82.5% 74.3%
3223701 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 42.0 3.64e-01 82.5% 77.1%
4234615 330.4.1.0 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain 0.57 42.0 4.04e-01 81.0% 100.0%
3555736 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 41.0 3.16e-01 90.5% 32.7%
3276865 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.56 38.0 3.40e-01 73.0% 49.0%
119224 3098.1.1.1 ↗ a+b two layers › Uncharacterized protein ATC0905 › Uncharacterized protein ATC0905 › Uncharacterized protein ATC0905 › DUF1491 0.56 45.0 3.82e-01 95.2% 78.8%
3845569 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.56 46.0 4.04e-01 100.0% 84.3%
3569682 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.56 47.0 3.95e-01 98.4% 78.3%
4883192 3019.1.1.1 ↗ beta sandwiches › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › Flagellin_IN 0.56 40.0 3.30e-01 77.8% 63.1%
3321071 101.1.2.115 ↗ alpha arrays › HTH › HTH › winged helix domain › CDC27 0.55 46.0 3.58e-01 93.7% 42.9%
3789334 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.55 46.0 3.97e-01 96.8% 81.9%
3389065 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 45.0 3.88e-01 98.4% 80.9%
3801678 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 45.0 3.71e-01 96.8% 78.4%
3520074 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 44.0 4.01e-01 95.2% 92.2%
3710894 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.54 37.0 3.81e-01 73.0% 84.5%
3803932 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.53 45.0 3.84e-01 100.0% 92.7%
3581058 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.53 39.0 3.54e-01 82.5% 78.9%
3636403 4001.1.1.4 ↗ a+b duplicates or obligate multimers › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › a+b domain in cullin-like proteins › Cullin_AB 0.53 41.0 3.30e-01 85.7% 53.8%
3582833 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.52 43.0 3.73e-01 100.0% 91.8%
4323898 327.6.1.3 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › Germane 0.52 35.0 2.78e-01 71.4% 66.0%
3582490 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 46.0 4.01e-01 100.0% 68.4%
4867320 221.1.1.66 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PIK3CG_ABD 0.51 42.0 3.74e-01 100.0% 91.2%
3672250 207.1.1.116 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_FBXL15 0.51 41.0 3.06e-01 95.2% 39.5%
3620456 221.1.1.64 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Formin_GBD_N 0.50 41.0 3.58e-01 100.0% 91.8%
3575645 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.50 35.0 3.26e-01 73.0% 95.0%