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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00612

Bact-Vir

RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00612

Identity

Kingdom:
phage

Quality

87.4 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 7-94
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3mswA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.71 50.0 4.26e-01 75.0% 46.8%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.69 58.0 6.06e-01 93.2% 98.8%
1mpgA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.68 38.0 3.49e-01 71.6% 42.0%
4r8oA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.66 47.0 4.59e-01 75.0% 68.4%
4o7iA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.62 43.0 3.37e-01 83.0% 34.6%
4nkbA01 3.30.1120.120 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.62 49.0 4.52e-01 85.2% 70.2%
7szeB02 3.90.380.10 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 0.61 43.0 3.36e-01 72.7% 38.0%
2vt8A00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.61 49.0 4.17e-01 87.5% 75.5%
1ah5A03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.60 48.0 4.93e-01 88.6% 98.8%
4yfbC01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.59 41.0 2.90e-01 71.6% 97.6%
3p24A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.59 42.0 3.48e-01 75.0% 61.4%
3tg9A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.58 45.0 3.04e-01 81.8% 70.5%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.58 41.0 4.12e-01 81.8% 71.9%
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.58 41.0 4.21e-01 75.0% 76.2%
4on1A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.58 42.0 3.56e-01 75.0% 56.8%
3u1wA01 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 52.0 4.10e-01 100.0% 49.7%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.58 38.0 4.03e-01 79.5% 75.6%
1s4uX00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 45.0 2.94e-01 83.0% 48.3%
2xzhA00 2.130.10.110 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Clathrin heavy-chain terminal domain 0.57 50.0 3.34e-01 97.7% 58.1%
3cmbA00 2.40.400.10 Mainly Beta › Beta Barrel › Acetoacetate decarboxylase-like › Acetoacetate decarboxylase-like 0.57 41.0 2.94e-01 76.1% 46.4%
7ne4A01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.57 45.0 3.14e-01 89.8% 39.5%
4e2aA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 42.0 3.38e-01 78.4% 67.6%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.56 39.0 4.14e-01 78.4% 80.0%
1k32A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 46.0 3.10e-01 92.0% 59.7%
2i52B00 3.30.1300.20 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 7,8-dihydroneopterin aldolase (MptD) 0.55 39.0 3.60e-01 73.9% 63.8%
2ae6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 42.0 3.53e-01 80.7% 59.2%
1xebA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 40.0 3.39e-01 77.3% 67.8%
3kl0D01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 41.0 3.87e-01 93.2% 66.0%
3d2mA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 39.0 3.32e-01 77.3% 62.0%
3dr6B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 42.0 3.39e-01 83.0% 74.6%
1ro5A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 40.0 3.15e-01 79.5% 68.4%
3lm3A02 3.30.1120.110 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.53 43.0 4.10e-01 88.6% 94.4%
6wqbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 40.0 3.41e-01 80.7% 64.2%
6wqbA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 41.0 3.53e-01 83.0% 82.1%
1q2yA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 41.0 3.52e-01 83.0% 80.7%
3n7zA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 39.0 3.43e-01 78.4% 75.0%
1xeaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 39.0 3.06e-01 78.4% 66.1%
3g8wB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 39.0 3.22e-01 78.4% 64.6%
4avaA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 40.0 3.23e-01 83.0% 85.8%
3ld2B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 42.0 3.45e-01 87.5% 77.2%
3p9xA00 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.51 45.0 3.51e-01 100.0% 91.3%
2w4yA00 2.40.160.220 Mainly Beta › Beta Barrel › Porin › 0.51 39.0 3.56e-01 83.0% 83.6%
3w9kA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 39.0 3.51e-01 90.9% 56.3%
3ec4B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 37.0 2.81e-01 78.4% 37.7%
3frmA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 41.0 2.97e-01 87.5% 46.0%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 41.0 3.41e-01 87.5% 84.9%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4955671 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.71 54.0 5.71e-01 80.7% 98.8%
3241869 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.70 57.0 5.23e-01 96.6% 69.1%
3179848 241.15.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › PI31_Prot_N 0.66 55.0 4.72e-01 90.9% 74.8%
3387460 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.65 47.0 4.29e-01 75.0% 65.2%
3690503 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.65 53.0 4.99e-01 89.8% 79.8%
4015773 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.64 54.0 5.16e-01 90.9% 84.0%
3164538 5084.1.1.2 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › OmpA_membrane 0.64 49.0 3.81e-01 83.0% 70.8%
4229035 2484.1.1.12 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Acetate_kinase 0.63 51.0 3.92e-01 94.3% 38.5%
None — 0.63 52.0 5.35e-01 92.0% 100.0%
3167601 216.1.1.20 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.63 52.0 5.13e-01 90.9% 88.4%
3228242 4210.1.1.1 ↗ a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.62 46.0 4.42e-01 78.4% 93.0%
4453707 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.62 55.0 4.11e-01 98.9% 46.8%
3331262 216.1.1.20 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.62 52.0 5.09e-01 94.3% 92.6%
3823242 216.1.1.5 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › BRE 0.61 52.0 4.75e-01 96.6% 81.7%
1296460 216.2.1.1 ↗ a+b two layers › UBC-like › Thermo-DBP-RP2 C-terminal domain › Thermo-DBP-RP2 C-terminal domain › Thermo-DBP 0.61 48.0 4.55e-01 92.0% 70.8%
3766842 5.1.5.43 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WDR93 0.61 46.0 2.84e-01 80.7% 44.4%
2559760 216.1.1.5 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › BRE 0.60 50.0 4.55e-01 94.3% 81.0%
3866695 295.1.1.3 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.60 46.0 3.79e-01 81.8% 69.0%
4990576 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.59 45.0 3.79e-01 79.5% 67.6%
3655560 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.59 50.0 3.96e-01 94.3% 58.9%
3979195 274.1.1.35 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › DUF2509 0.59 43.0 3.86e-01 83.0% 53.6%
5069164 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.59 44.0 3.71e-01 77.3% 68.6%
5054481 3111.1.1.0 ↗ beta barrels › STT3/PglB/AglB beta-barrel domain › STT3/PglB/AglB beta-barrel domain › STT3/PglB/AglB beta-barrel domain 0.59 45.0 4.28e-01 81.8% 98.1%
3191953 844.1.1.2 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.59 48.0 3.77e-01 88.6% 57.3%
3222106 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.59 43.0 3.87e-01 80.7% 56.7%
3935896 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.58 40.0 3.46e-01 83.0% 47.7%
5019569 213.1.1.37 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_18 0.58 40.0 3.31e-01 71.6% 87.7%
4090939 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.58 45.0 4.63e-01 86.4% 93.8%
3789023 3504.2.1.1 ↗ beta barrels › MutM N-terminal domain-like › N-terminal domain of MutM-like DNA repair proteins › N-terminal domain of MutM-like DNA repair proteins › Fapy_DNA_glyco 0.58 47.0 3.91e-01 88.6% 93.5%
3258452 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 48.0 4.36e-01 98.9% 67.5%
5019578 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 42.0 3.35e-01 77.3% 62.3%
3974590 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.57 42.0 3.51e-01 77.3% 65.3%
151649 5.1.4.11 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Clathrin_propel 0.57 50.0 3.40e-01 97.7% 63.4%
3580035 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 49.0 3.30e-01 97.7% 59.1%
5057541 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.56 41.0 3.34e-01 77.3% 63.6%
5021438 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 41.0 3.96e-01 96.6% 69.0%
3781326 868.1.1.8 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › SLS1_C 0.56 46.0 3.20e-01 90.9% 99.7%
3803814 11.10.1.5 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.55 47.0 3.78e-01 95.5% 87.4%
4958631 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.55 43.0 3.52e-01 83.0% 81.2%
4996495 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.54 40.0 3.28e-01 78.4% 61.6%
4034236 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.54 42.0 3.79e-01 83.0% 75.0%
3206926 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 45.0 3.22e-01 95.5% 52.9%
4470389 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.53 39.0 3.21e-01 78.4% 66.5%
4140251 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.53 39.0 3.28e-01 77.3% 68.0%
3709589 11.10.1.5 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.53 45.0 3.63e-01 95.5% 71.4%
4277447 206.1.1.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.52 44.0 3.37e-01 94.3% 65.6%
3587257 213.1.1.21 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › LPG_synthase_C 0.52 40.0 3.05e-01 80.7% 46.3%
5048527 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.52 42.0 3.51e-01 87.5% 74.2%
409684 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.52 42.0 3.45e-01 87.5% 77.6%
4281376 5.1.3.20 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › PD40 0.51 41.0 2.87e-01 92.0% 61.2%
4983588 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.50 37.0 3.94e-01 77.3% 96.0%
5038572 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.50 37.0 3.14e-01 78.4% 51.3%
5083360 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.50 38.0 3.29e-01 83.0% 80.6%