←Back to structures

RifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00566

Bact-Vir

RifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00566

Identity

Kingdom:
phage

Quality

80.8 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 2-89
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p0hA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 49.0 3.39e-01 76.1% 100.0%
6wqbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.65 50.0 4.25e-01 83.0% 98.6%
2k5tA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 49.0 4.33e-01 80.7% 100.0%
3c0kA02 3.30.750.80 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › RNA methyltransferase domain (HRMD) like 0.64 49.0 4.58e-01 81.8% 95.4%
3p2hA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 49.0 3.95e-01 84.1% 94.0%
3vseB02 3.30.750.80 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › RNA methyltransferase domain (HRMD) like 0.63 46.0 4.45e-01 78.4% 93.0%
2ozhA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 45.0 3.97e-01 84.1% 89.5%
2fiwA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 44.0 3.72e-01 84.1% 81.2%
3f8kA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 43.0 3.90e-01 83.0% 87.0%
3ijfX00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.57 46.0 4.12e-01 87.5% 87.8%
3ux3A01 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.56 43.0 4.21e-01 83.0% 88.7%
6l4lA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.56 44.0 4.15e-01 89.8% 85.3%
1yx0A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 42.0 3.60e-01 81.8% 84.8%
2fhxA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.55 44.0 3.29e-01 94.3% 32.2%
4xpkA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 45.0 3.90e-01 90.9% 70.2%
1a7tA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.55 46.0 3.45e-01 93.2% 36.6%
3mogA03 3.30.750.190 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.54 41.0 4.04e-01 80.7% 76.6%
2q7bA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 44.0 3.68e-01 94.3% 68.9%
5bkeC00 3.60.130.10 Alpha Beta › 4-Layer Sandwich › Double-stranded beta-helix › Clavaminate synthase-like 0.52 40.0 2.76e-01 80.7% 98.3%
3g3sA01 3.40.630.110 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › GNAT acetyltransferase-like 0.51 42.0 3.87e-01 89.8% 75.9%
2ft0A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 41.0 3.15e-01 92.0% 36.0%
2xotB01 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.51 43.0 3.17e-01 95.5% 42.9%
1ysrA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.51 42.0 3.70e-01 94.3% 95.6%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5060697 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.66 51.0 4.52e-01 83.0% 92.3%
3938069 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.64 49.0 4.26e-01 81.8% 92.6%
3417568 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.62 42.0 4.04e-01 70.5% 77.7%
4941271 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 46.0 3.93e-01 80.7% 94.6%
4206689 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 47.0 4.08e-01 83.0% 95.0%
4976954 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.61 46.0 4.73e-01 80.7% 84.7%
4931021 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.58 45.0 3.89e-01 84.1% 81.4%
3714745 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.58 44.0 3.84e-01 80.7% 91.9%
4236629 213.1.1.31 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.58 47.0 4.26e-01 87.5% 85.8%
3290168 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.58 47.0 3.84e-01 87.5% 65.6%
4071667 213.1.1.24 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › GNAT_acetyltran 0.58 43.0 4.11e-01 92.0% 67.6%
3480913 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.57 39.0 3.98e-01 70.5% 74.1%
4449065 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.57 46.0 3.05e-01 96.6% 20.9%
4951902 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 43.0 3.99e-01 83.0% 95.0%
4930600 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.57 46.0 3.57e-01 92.0% 38.5%
3944504 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 49.0 3.92e-01 93.2% 70.4%
3281642 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.57 48.0 3.84e-01 95.5% 64.9%
5042482 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 44.0 3.72e-01 85.2% 85.8%
3739709 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.57 39.0 3.85e-01 71.6% 76.8%
5065348 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 47.0 3.76e-01 89.8% 64.7%
5011430 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.56 45.0 3.55e-01 90.9% 42.9%
3499583 109.4.1.1196 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Glyco_hydro_15 0.56 39.0 2.89e-01 84.1% 26.7%
4995241 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.56 39.0 4.13e-01 77.3% 81.2%
3280916 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.55 45.0 3.75e-01 89.8% 68.8%
4943226 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.55 38.0 3.97e-01 71.6% 80.0%
5043109 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.55 46.0 3.49e-01 93.2% 38.2%
4215086 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 46.0 4.06e-01 93.2% 74.6%
4270298 513.1.1.1 ↗ a+b two layers › Obg GTP-binding protein C-terminal domain-like › Obg GTP-binding protein C-terminal domain › Obg GTP-binding protein C-terminal domain › DUF1967 0.54 42.0 4.33e-01 84.1% 88.2%
4655780 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.53 44.0 2.97e-01 94.3% 25.7%
3402631 109.4.1.891 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_HEATR1 0.53 42.0 2.49e-01 86.4% 15.7%
4945822 5104.1.1.0 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.53 40.0 3.61e-01 83.0% 80.0%
1714651 10.12.1.12 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › TauD 0.52 44.0 3.04e-01 93.2% 88.6%
3990440 247.1.1.30 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Anti-Pycsar_Apyc1 0.52 45.0 3.23e-01 94.3% 34.3%
4932853 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 42.0 3.03e-01 87.5% 40.4%
4401040 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.51 41.0 4.15e-01 95.5% 88.9%
4250657 513.2.1.0 ↗ a+b two layers › Obg GTP-binding protein C-terminal domain-like › Putative transferase PH0793 N-terminal domain › Putative transferase PH0793 N-terminal domain 0.50 40.0 2.84e-01 90.9% 57.9%
D2 high residues 98-229
PDB
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wfxA02 3.20.170.30 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › 0.84 57.0 6.84e-01 96.2% 100.0%
2hw2A00 3.20.170.40 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › Rifampin ADP-ribosyltransferase domain 0.74 57.0 5.66e-01 96.2% 76.8%
2x5yA00 3.90.228.10 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.71 60.0 5.44e-01 99.2% 68.4%
1htlA00 3.90.210.10 Alpha Beta › Alpha-Beta Complex › Heat-Labile Enterotoxin; Chain A › Heat-Labile Enterotoxin, subunit A 0.67 61.0 5.36e-01 97.0% 72.4%
2auaA01 3.20.170.10 Alpha Beta › Alpha-Beta Barrel › ADP-ribosylation fold › ADP-ribosylation domain 0.64 46.0 5.04e-01 94.7% 91.7%
4k6lG00 3.90.210.10 Alpha Beta › Alpha-Beta Complex › Heat-Labile Enterotoxin; Chain A › Heat-Labile Enterotoxin, subunit A 0.63 58.0 4.86e-01 100.0% 64.7%
2cb4A00 3.90.210.10 Alpha Beta › Alpha-Beta Complex › Heat-Labile Enterotoxin; Chain A › Heat-Labile Enterotoxin, subunit A 0.62 58.0 4.59e-01 100.0% 62.8%
1bcpA00 3.90.210.10 Alpha Beta › Alpha-Beta Complex › Heat-Labile Enterotoxin; Chain A › Heat-Labile Enterotoxin, subunit A 0.62 57.0 4.78e-01 100.0% 70.5%
1gs0A02 3.90.228.10 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.62 56.0 4.75e-01 98.5% 73.5%
4gv2A02 3.90.228.10 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.60 56.0 4.71e-01 99.2% 73.8%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4622968 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.85 55.0 6.72e-01 91.7% 96.7%
4008473 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.85 55.0 6.40e-01 91.7% 87.9%
4296568 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.84 58.0 6.79e-01 98.5% 96.8%
4125268 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.84 56.0 6.75e-01 92.4% 98.9%
4679144 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.83 56.0 6.59e-01 93.9% 94.7%
3106804 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.83 59.0 6.64e-01 97.0% 92.2%
4303698 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.83 55.0 6.53e-01 100.0% 94.7%
5077692 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.82 60.0 6.69e-01 95.5% 93.3%
4994805 237.1.1.4 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PTS_2-RNA 0.82 58.0 6.50e-01 100.0% 92.2%
4887935 237.1.1.17 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › Arr-ms 0.69 56.0 5.49e-01 97.7% 80.0%
3879371 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.68 59.0 5.30e-01 97.0% 67.8%
3727394 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.65 59.0 4.74e-01 97.7% 67.2%
3631884 237.1.1.36 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › DUF7587 0.65 58.0 5.46e-01 96.2% 100.0%
4952123 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.63 31.0 4.33e-01 92.4% 100.0%
3694624 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.63 57.0 4.57e-01 97.7% 65.2%
3735675 237.1.1.36 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › DUF7587 0.63 55.0 5.36e-01 93.9% 100.0%
4404123 237.1.1.24 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › Scabin-like 0.63 59.0 4.67e-01 100.0% 58.4%
4995698 237.1.1.0 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation 0.63 46.0 5.17e-01 90.9% 100.0%
3252897 237.1.1.1 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › PARP 0.63 57.0 4.83e-01 97.7% 70.5%
7437 237.1.1.33 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › Pertussis_S1, Scabin-like 0.62 57.0 4.76e-01 100.0% 71.0%
3483050 237.1.1.18 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation › DUF3715 0.61 55.0 4.57e-01 98.5% 67.8%
3773042 237.1.1.0 ↗ a+b complex topology › ADP-ribosylation › ADP-ribosylation › ADP-ribosylation 0.60 55.0 4.73e-01 97.7% 75.9%