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RifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00569
Bact-VirRifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00569
Identity
- Kingdom:
- phage
Quality
84.3
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 55-208
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04294.19 best | VanW | 140.3 | 3.60e-41 | 85.7% | 93.1% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2nwaA01 | 2.40.240.20 | Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 | 0.54 | 22.0 | 2.98e-01 | 98.7% | 69.3% |
| 2va0A00 | 3.30.450.160 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › | 0.53 | 31.0 | 3.79e-01 | 87.7% | 89.9% |
| 4ew7A00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.51 | 29.0 | 3.25e-01 | 87.0% | 71.7% |
| 2bddA00 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.51 | 39.0 | 4.22e-01 | 98.7% | 95.3% |
| 2di7A01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.51 | 34.0 | 3.91e-01 | 87.7% | 98.1% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3283090 | 11.1.1.1232 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26059 | 0.58 | 27.0 | 3.53e-01 | 98.1% | 80.0% |
| 3981007 | 319.3.1.0 ↗ | beta sandwiches › HSP20-like › B2 domain of PilQ › B2 domain of PilQ | 0.56 | 35.0 | 4.11e-01 | 100.0% | 91.4% |
| 5073891 | 331.3.1.0 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like | 0.55 | 29.0 | 3.57e-01 | 98.1% | 79.0% |
| 3299630 | 331.4.1.0 ↗ | a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 | 0.54 | 29.0 | 3.48e-01 | 99.4% | 77.1% |
| 3967996 | 223.1.1.76 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_7 | 0.50 | 31.0 | 3.49e-01 | 98.7% | 80.0% |
D2
high
residues 213-281
Domain cluster:
representative
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2f86B00 | 3.10.450.50 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.69 | 46.0 | 3.72e-01 | 95.7% | 36.4% |
| 5odnC00 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.69 | 42.0 | 3.68e-01 | 92.8% | 41.2% |
| 1jkfA03 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.68 | 41.0 | 4.32e-01 | 98.6% | 68.3% |
| 3cygA01 | 3.30.565.40 | Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like | 0.68 | 42.0 | 3.54e-01 | 97.1% | 36.1% |
| 4ibnA01 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.65 | 43.0 | 3.18e-01 | 92.8% | 25.0% |
| 2nujA01 | 3.10.129.10 | Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase | 0.65 | 43.0 | 3.31e-01 | 95.7% | 31.8% |
| 1d3bB00 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.63 | 41.0 | 3.91e-01 | 89.9% | 56.8% |
| 4n4rB00 | 3.30.160.150 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain | 0.62 | 46.0 | 3.56e-01 | 98.6% | 36.4% |
| 2vw9B00 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.61 | 42.0 | 3.76e-01 | 92.8% | 48.6% |
| 2bi0A02 | 3.10.129.10 | Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase | 0.60 | 41.0 | 3.28e-01 | 95.7% | 33.3% |
| 2r76A00 | 3.30.160.150 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain | 0.59 | 44.0 | 3.58e-01 | 98.6% | 41.7% |
| 3hvnA02 | 3.30.1040.20 | Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › | 0.59 | 36.0 | 4.00e-01 | 88.4% | 79.2% |
| 3tipA00 | 2.20.230.10 | Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. | 0.59 | 53.0 | 4.30e-01 | 100.0% | 53.8% |
| 4fzqA00 | 2.20.230.10 | Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. | 0.59 | 50.0 | 4.88e-01 | 100.0% | 86.1% |
| 4fumA01 | 2.20.230.10 | Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. | 0.58 | 52.0 | 5.08e-01 | 98.6% | 93.2% |
| 2xzmZ00 | 3.30.1230.20 | Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 | 0.58 | 30.0 | 2.69e-01 | 84.1% | 34.0% |
| 1s3rA02 | 3.30.1040.20 | Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › | 0.58 | 36.0 | 4.01e-01 | 89.9% | 81.1% |
| 2pzhA00 | 3.10.129.10 | Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase | 0.57 | 42.0 | 3.39e-01 | 95.7% | 40.3% |
| 1se8A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.57 | 39.0 | 3.42e-01 | 92.8% | 45.0% |
| 6rupA00 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.57 | 38.0 | 3.37e-01 | 92.8% | 44.1% |
| 3gw6D02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.56 | 40.0 | 3.14e-01 | 78.3% | 43.5% |
| 1p1hB01 | 3.30.2360.10 | Alpha Beta › 2-Layer Sandwich › Glyceraldehyde-3-phosphate dehydrogenase-like fold › Glyceraldehyde-3-phosphate dehydrogenase-like domain | 0.55 | 36.0 | 2.78e-01 | 88.4% | 26.1% |
| 2ltjA00 | 2.20.230.10 | Mainly Beta › Single Sheet › Resuscitation-promoting factor rpfb fold › Resuscitation-promoting factor rpfb. | 0.55 | 47.0 | 4.04e-01 | 95.7% | 59.5% |
| 5tseA00 | 3.30.160.150 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain | 0.54 | 38.0 | 3.20e-01 | 100.0% | 39.7% |
| 4yfbC02 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.51 | 30.0 | 2.96e-01 | 81.2% | 51.3% |
| 3gw6A03 | 3.30.2460.10 | Alpha Beta › 2-Layer Sandwich › Endo-n-acetylneuraminidase fold › Endo-n-acetylneuraminidase domain | 0.51 | 34.0 | 3.65e-01 | 71.0% | 87.7% |
| 7uclA01 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.50 | 34.0 | 3.11e-01 | 92.8% | 49.0% |
| 3anzC00 | 2.70.240.10 | Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA | 0.50 | 40.0 | 2.83e-01 | 98.6% | 69.0% |
ECOD (35)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4031475 | 706.2.1.2 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G | 0.73 | 64.0 | 4.06e-01 | 100.0% | 19.5% |
| 3301111 | 331.3.1.25 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like › PaO | 0.71 | 45.0 | 3.59e-01 | 89.9% | 32.6% |
| 4942841 | 243.1.1.0 ↗ | a+b two layers › Cystatin-like › NTF2-like › NTF2-like | 0.71 | 47.0 | 3.95e-01 | 95.7% | 40.9% |
| 3783089 | 4099.1.1.0 ↗ | a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like | 0.69 | 45.0 | 3.70e-01 | 94.2% | 38.3% |
| 4209937 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.66 | 60.0 | 5.82e-01 | 98.6% | 90.7% |
| 3595969 | 216.1.1.0 ↗ | a+b two layers › UBC-like › UBC-like › UBC-like | 0.65 | 39.0 | 3.27e-01 | 92.8% | 35.7% |
| 3577548 | 331.12.1.0 ↗ | a+b two layers › TBP-like › YugN-like › YugN-like | 0.63 | 41.0 | 3.50e-01 | 95.7% | 40.7% |
| 3703275 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.62 | 49.0 | 4.22e-01 | 92.8% | 53.0% |
| 3488620 | 395.1.1.0 ↗ | few secondary structure elements › Midkine-related › Midkine-related › Midkine-related | 0.62 | 49.0 | 5.06e-01 | 92.8% | 93.8% |
| 4591455 | 209.1.2.1 ↗ | a+b complex topology › C-type lectin-like › C-type lectin-like › Sulfatase-modifying factor-like › FGE-sulfatase | 0.62 | 40.0 | 2.86e-01 | 81.2% | 20.4% |
| 4071921 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.61 | 53.0 | 4.04e-01 | 98.6% | 43.3% |
| 4055918 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.61 | 54.0 | 5.23e-01 | 95.7% | 89.3% |
| 3495218 | 922.1.1.9 ↗ | few secondary structure elements › TSP-1 type 1 repeat › TSP-1 type 1 repeat › TSP-1 type 1 repeat › TSP1_2 | 0.60 | 42.0 | 4.66e-01 | 95.7% | 100.0% |
| 3557455 | 2003.1.5.81 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 | 0.60 | 42.0 | 2.78e-01 | 97.1% | 17.3% |
| 3459303 | 3270.1.1.0 ↗ | a+b two layers › a+b domain in heme oxygenase › a+b domain in heme oxygenase › a+b domain in heme oxygenase | 0.60 | 39.0 | 3.44e-01 | 97.1% | 46.0% |
| 3599731 | 2.1.1.0 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein | 0.59 | 47.0 | 3.55e-01 | 92.8% | 33.7% |
| 3995685 | 2.1.1.6 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB | 0.59 | 40.0 | 3.54e-01 | 92.8% | 45.9% |
| 4132478 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.59 | 53.0 | 4.73e-01 | 98.6% | 74.7% |
| 866038 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.59 | 50.0 | 4.88e-01 | 100.0% | 86.1% |
| 1720136 | 5084.5.3.1 ↗ | beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel | 0.59 | 38.0 | 4.11e-01 | 91.3% | 83.3% |
| 4100091 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.59 | 39.0 | 2.70e-01 | 95.7% | 19.3% |
| 4929184 | 220.1.1.0 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like | 0.58 | 40.0 | 3.12e-01 | 97.1% | 31.6% |
| 3989763 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.58 | 51.0 | 3.93e-01 | 97.1% | 45.3% |
| 2035523 | 2.1.1.6 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB | 0.57 | 41.0 | 3.60e-01 | 95.7% | 48.2% |
| 3215667 | 2.1.1.6 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB | 0.56 | 40.0 | 3.42e-01 | 94.2% | 44.2% |
| 1682689 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.55 | 47.0 | 4.48e-01 | 95.7% | 80.5% |
| 4882343 | 2003.1.1.59 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_5 | 0.55 | 34.0 | 2.24e-01 | 82.6% | 12.7% |
| 3193241 | 223.2.1.22 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like › Folliculin | 0.55 | 34.0 | 2.79e-01 | 92.8% | 32.3% |
| 4547123 | 706.2.1.1 ↗ | beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 | 0.55 | 47.0 | 4.76e-01 | 94.2% | 94.3% |
| 3825482 | 330.7.1.0 ↗ | a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain | 0.54 | 40.0 | 3.77e-01 | 94.2% | 64.7% |
| 3552040 | 4099.1.1.30 ↗ | a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Med14_C | 0.53 | 40.0 | 3.17e-01 | 92.8% | 39.3% |
| 3997968 | 5.1.5.128 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Beta-prop_NUP159_NUP214 | 0.52 | 44.0 | 2.96e-01 | 95.7% | 23.6% |
| 3899657 | 7026.1.1.13 ↗ | beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › Hobbit | 0.52 | 42.0 | 3.05e-01 | 94.2% | 29.8% |
| 3382839 | 7026.1.1.13 ↗ | beta meanders › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › N-terminal region of lipid transporter Vps13 › Hobbit | 0.51 | 39.0 | 2.36e-01 | 92.8% | 12.2% |
| 4025866 | 5.1.4.1 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 | 0.50 | 44.0 | 2.83e-01 | 100.0% | 91.9% |