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NC_020866.1__YP_007676405.1__RHVG_00026__00026

Bact-Vir

NC_020866.1__YP_007676405.1__RHVG_00026__00026

Identity

Accession:
NC_020866 ↗
Kingdom:
phage

Quality

85.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodovulum_phage_RS1

TaxID: 754056

Cluster

View cluster (5 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 5-145
PDB
Domain cluster: rep: NC_048757.1__YP_009844891.1__HWC13_gp082__00082__D5-149
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00959.25 best Phage_lysozyme 96.7 1.80e-27 90.8% 98.4%
D2 medium residues 155-234
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01471.24 best PG_binding_1 25.1 2.20e-05 55.0% 47.4%
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4c2dA02 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.85 72.0 7.02e-01 88.7% 87.1%
1eakA01 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.78 55.0 6.13e-01 73.8% 93.7%
4g54A02 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.77 59.0 6.20e-01 81.2% 93.1%
7aj9A01 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.75 56.0 6.07e-01 78.8% 94.0%
3bkhA01 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.73 61.0 6.01e-01 90.0% 86.0%
1lbuA01 1.10.101.10 Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD 0.72 57.0 5.68e-01 85.0% 90.5%
3dgpA00 3.30.70.2610 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 41.0 4.55e-01 86.3% 88.7%
2nr7A00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.60 52.0 3.88e-01 95.0% 47.4%
4zbwA02 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.59 43.0 4.20e-01 77.5% 70.1%
2e5vA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 44.0 3.10e-01 83.7% 82.8%
1rt8A04 1.10.418.10 Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Calponin-like domain 0.57 42.0 3.83e-01 78.8% 74.3%
1s7hA02 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 39.0 3.89e-01 78.8% 70.7%
4d81A02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.54 37.0 3.60e-01 95.0% 61.7%
2l10A00 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.53 36.0 2.91e-01 70.0% 62.7%
1bxiA00 1.10.1200.20 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Colicin E immunity protein 0.53 37.0 3.74e-01 88.7% 71.1%
3t4rA00 1.20.120.1590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.52 42.0 4.40e-01 96.2% 100.0%
2oezA02 1.10.3900.10 Mainly Alpha › Orthogonal Bundle › YacF-like › YacF-like 0.52 36.0 2.89e-01 71.2% 91.4%
1q2wA03 1.10.1840.10 Mainly Alpha › Orthogonal Bundle › main proteinase (3clpro) structure, domain 3 › main proteinase (3clpro) structure, domain 3 0.50 41.0 3.85e-01 93.8% 77.9%
3vskA02 1.10.10.1230 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Penicillin-binding protein, N-terminal non-catalytic domain, head sub-domain 0.50 37.0 3.10e-01 78.8% 93.6%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4380775 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.85 65.0 4.67e-01 78.8% 32.5%
4312892 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.85 59.0 6.82e-01 72.5% 98.3%
1165079 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.84 71.0 6.66e-01 90.0% 80.2%
3788528 144.1.1.0 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like 0.83 68.0 5.38e-01 87.5% 78.1%
4032027 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.83 66.0 6.47e-01 83.7% 82.4%
4117418 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.82 57.0 6.43e-01 71.2% 100.0%
1877329 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.82 59.0 6.02e-01 75.0% 82.9%
3275963 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.81 65.0 6.19e-01 83.7% 80.0%
3631772 144.1.1.0 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like 0.79 68.0 5.09e-01 91.3% 65.0%
4473649 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.79 60.0 5.93e-01 80.0% 87.1%
3291401 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.79 60.0 5.90e-01 80.0% 83.5%
3957237 144.1.1.0 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like 0.78 60.0 6.19e-01 80.0% 100.0%
3955223 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.77 64.0 6.41e-01 87.5% 98.8%
4010440 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.76 59.0 6.10e-01 82.5% 90.7%
4173379 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.76 60.0 6.01e-01 83.7% 90.0%
4055540 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.76 57.0 6.14e-01 80.0% 92.8%
3590520 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.75 58.0 5.82e-01 81.2% 90.0%
1498420 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.75 60.0 6.15e-01 83.7% 88.2%
1934000 144.1.1.2 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1,PG_binding_5 0.75 65.0 5.07e-01 92.5% 82.9%
3764906 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.73 55.0 5.58e-01 80.0% 83.7%
3772398 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.73 58.0 5.86e-01 86.3% 85.0%
224034 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.73 61.0 6.13e-01 91.3% 93.8%
3247155 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.72 54.0 5.88e-01 81.2% 96.9%
2819638 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.71 59.0 5.21e-01 90.0% 64.7%
4262263 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.70 58.0 6.02e-01 90.0% 97.3%
3946056 144.1.1.1 ↗ alpha arrays › PGBD-like › PGBD-like › PGBD-like › PG_binding_1 0.70 55.0 4.97e-01 87.5% 62.0%
7431 235.1.1.13 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glyco_hydro_108,PG_binding_3 0.60 52.0 3.89e-01 95.0% 47.9%
3310266 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.59 33.0 3.54e-01 72.5% 61.4%
4928400 3715.1.1.0 ↗ a+b two layers › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal protein L22e 0.59 42.0 4.25e-01 75.0% 97.5%
3453949 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.55 46.0 3.15e-01 95.0% 38.4%
4967865 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.55 45.0 2.95e-01 93.8% 85.0%
3262871 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.53 42.0 4.34e-01 85.0% 96.0%
3641442 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.52 35.0 3.27e-01 70.0% 57.1%
3278726 101.1.1.282 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF222 0.52 35.0 3.03e-01 70.0% 72.0%
3189837 129.1.1.0 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like 0.51 45.0 3.35e-01 98.8% 73.3%
3652177 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.51 35.0 3.35e-01 71.2% 86.2%
3369564 130.1.1.39 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › DUF7086 0.50 39.0 3.31e-01 85.0% 62.9%