←Back to structures
RifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00469
Bact-VirRifSed_csp2_10ft_3_scaffold_6_prodigal-single.1__X__X__00469
Identity
- Kingdom:
- phage
Quality
44.2
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 26-65
Domain cluster:
representative
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6cz7A01 | 2.20.25.90 | Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ADC-like domains | 0.68 | 45.0 | 4.01e-01 | 70.0% | 51.6% |
| 6muwB00 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.67 | 56.0 | 3.56e-01 | 100.0% | 37.6% |
| 6z46V01 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.66 | 55.0 | 3.67e-01 | 100.0% | 45.1% |
| 2it9A00 | 2.30.31.10 | Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A | 0.66 | 54.0 | 3.95e-01 | 100.0% | 36.7% |
| 2yzcA00 | 3.10.270.10 | Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; | 0.66 | 51.0 | 3.08e-01 | 87.5% | 35.2% |
| 3i3wA01 | 3.40.120.10 | Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 | 0.65 | 51.0 | 3.64e-01 | 97.5% | 48.3% |
| 1rypK00 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.64 | 51.0 | 3.41e-01 | 100.0% | 43.4% |
| 1u0kA01 | 3.10.310.10 | Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 | 0.63 | 50.0 | 3.65e-01 | 97.5% | 47.0% |
| 2vpzA01 | 2.20.25.90 | Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ADC-like domains | 0.63 | 42.0 | 3.64e-01 | 70.0% | 47.8% |
| 1ryp200 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.62 | 49.0 | 3.19e-01 | 100.0% | 38.6% |
| 2kvtA00 | 3.30.730.30 | Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein | 0.62 | 41.0 | 3.51e-01 | 70.0% | 50.7% |
| 1ex0B02 | 3.90.260.10 | Alpha Beta › Alpha-Beta Complex › Coagulation Factor XIII; Chain A, domain 2 › Transglutaminase-like | 0.62 | 48.0 | 2.96e-01 | 100.0% | 69.5% |
| 3lkbA02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.62 | 51.0 | 3.45e-01 | 100.0% | 27.5% |
| 6pqmA01 | 2.60.260.20 | Mainly Beta › Sandwich › HSP40/DNAj peptide-binding domain › Urease metallochaperone UreE, N-terminal domain | 0.61 | 48.0 | 4.27e-01 | 95.0% | 65.1% |
| 4ca1B02 | 2.60.210.10 | Mainly Beta › Sandwich › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A › Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A | 0.61 | 50.0 | 3.60e-01 | 100.0% | 38.6% |
| 4p2iA00 | 3.30.1520.10 | Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain | 0.60 | 40.0 | 2.97e-01 | 70.0% | 36.8% |
| 5j9bA00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.57 | 44.0 | 3.05e-01 | 92.5% | 80.4% |
| 6l4lA01 | 3.10.310.10 | Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 | 0.56 | 42.0 | 3.31e-01 | 100.0% | 46.6% |
| 4fbcA01 | 3.40.420.10 | Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 | 0.56 | 44.0 | 3.05e-01 | 100.0% | 43.1% |
| 7zvsB01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.56 | 45.0 | 3.49e-01 | 95.0% | 82.8% |
| 3u1wA01 | 3.10.450.360 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.55 | 40.0 | 2.72e-01 | 87.5% | 28.4% |
| 1th0B00 | 3.40.395.10 | Alpha Beta › 3-Layer(aba) Sandwich › Adenoviral Proteinase; Chain › Adenoviral Proteinase; Chain A | 0.54 | 43.0 | 2.81e-01 | 100.0% | 24.2% |
| 1k32A01 | 2.120.10.60 | Mainly Beta › 6 Propeller › Neuraminidase › Tricorn protease N-terminal domain | 0.54 | 43.0 | 2.73e-01 | 100.0% | 25.4% |
| 4hcsA00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.54 | 44.0 | 3.83e-01 | 97.5% | 65.7% |
| 3mweB01 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.53 | 40.0 | 3.00e-01 | 100.0% | 36.2% |
| 2wqmA01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.52 | 41.0 | 3.53e-01 | 92.5% | 78.6% |
| 3teeA02 | 2.30.30.760 | Mainly Beta › Roll › SH3 type barrels. › | 0.51 | 40.0 | 3.50e-01 | 97.5% | 74.0% |
| 1eotA00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.51 | 41.0 | 3.44e-01 | 92.5% | 59.5% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3996695 | 3256.1.1.0 ↗ | a+b two layers › DUF2233 N-terminal domain › DUF2233 N-terminal domain › DUF2233 N-terminal domain | 0.75 | 50.0 | 4.54e-01 | 70.0% | 70.9% |
| 5031616 | 4.26.1.0 ↗ | beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 | 0.74 | 49.0 | 4.48e-01 | 70.0% | 72.7% |
| 3925915 | 809.2.1.0 ↗ | a+b two layers › BLIP-like › BT0923-like › BT0923-like | 0.70 | 46.0 | 4.38e-01 | 70.0% | 78.0% |
| 4934530 | 210.1.1.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome | 0.68 | 57.0 | 3.72e-01 | 100.0% | 42.1% |
| 3649824 | 5.1.3.6 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1 | 0.67 | 49.0 | 2.90e-01 | 80.0% | 17.8% |
| 3889863 | 277.1.1.1 ↗ | a+b two layers › PX domain › PX domain › PX domain › PX | 0.67 | 45.0 | 3.21e-01 | 70.0% | 30.0% |
| 4932317 | 210.1.1.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome | 0.67 | 55.0 | 3.57e-01 | 100.0% | 42.0% |
| 3682832 | 210.1.1.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome | 0.66 | 55.0 | 3.79e-01 | 100.0% | 33.5% |
| 5065765 | 210.1.1.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome | 0.65 | 54.0 | 3.52e-01 | 100.0% | 41.2% |
| 3480220 | 391.1.1.0 ↗ | few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module | 0.64 | 43.0 | 4.51e-01 | 77.5% | 100.0% |
| 5081645 | 7528.1.1.1 ↗ | a/b three-layered sandwiches › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › PGM_PMM_I | 0.64 | 50.0 | 3.68e-01 | 97.5% | 53.8% |
| 4280828 | 1.1.9.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain | 0.64 | 54.0 | 4.79e-01 | 100.0% | 81.7% |
| 4578847 | 702.1.1.3 ↗ | beta duplicates or obligate multimers › beta-hairpin stack › beta-hairpin stack › beta-hairpin stack › Choline_bind_1,Choline_bind_2 | 0.63 | 51.0 | 3.02e-01 | 95.0% | 16.6% |
| 5047013 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.63 | 49.0 | 4.56e-01 | 95.0% | 76.4% |
| 4858751 | 210.1.1.1 ↗ | a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome | 0.63 | 50.0 | 3.62e-01 | 92.5% | 39.1% |
| 3963838 | 4052.1.1.0 ↗ | beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like | 0.62 | 49.0 | 3.88e-01 | 100.0% | 93.0% |
| 4116968 | 2492.1.1.18 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB | 0.61 | 49.0 | 3.48e-01 | 100.0% | 33.3% |
| 3744883 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.61 | 48.0 | 3.47e-01 | 100.0% | 30.3% |
| 4174422 | 286.1.1.1 ↗ | a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase | 0.61 | 49.0 | 3.58e-01 | 100.0% | 44.6% |
| 3899366 | 389.1.1.93 ↗ | few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › Ephrin_CRD | 0.61 | 47.0 | 4.22e-01 | 95.0% | 69.2% |
| 5080700 | 2004.1.1.790 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GvpD_P-loop | 0.60 | 49.0 | 3.12e-01 | 100.0% | 20.4% |
| 5031992 | 316.1.1.2 ↗ | a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 | 0.60 | 43.0 | 2.97e-01 | 82.5% | 37.4% |
| 3393354 | 269.1.1.1 ↗ | a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen_C | 0.59 | 45.0 | 2.99e-01 | 100.0% | 19.5% |
| 5029588 | 268.1.1.0 ↗ | a+b two layers › Sterol carrier protein-like › Sterol carrier protein, SCP-related › Sterol carrier protein, SCP-related | 0.57 | 45.0 | 3.45e-01 | 92.5% | 46.0% |
| 3310464 | 375.1.1.69 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zinc_ribbon_12 | 0.56 | 43.0 | 4.18e-01 | 95.0% | 82.0% |
| 3511641 | 7528.1.1.5 ↗ | a/b three-layered sandwiches › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › AMG1_II | 0.56 | 44.0 | 3.32e-01 | 100.0% | 75.0% |
| 1140900 | 809.2.1.0 ↗ | a+b two layers › BLIP-like › BT0923-like › BT0923-like | 0.56 | 39.0 | 3.61e-01 | 80.0% | 86.4% |
| 3944566 | 809.1.1.10 ↗ | a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP › EndoU_bacteria | 0.55 | 43.0 | 3.95e-01 | 95.0% | 70.0% |
| 3707477 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.53 | 43.0 | 2.56e-01 | 100.0% | 23.7% |
| 4117423 | 3585.1.1.1 ↗ | a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA_pol_IIIA_C | 0.53 | 39.0 | 3.46e-01 | 90.0% | 62.7% |
| 4400628 | 3585.1.1.1 ↗ | a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA_pol_IIIA_C | 0.53 | 39.0 | 3.38e-01 | 90.0% | 60.8% |
| 4127806 | 3585.1.1.0 ↗ | a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain | 0.53 | 38.0 | 3.24e-01 | 90.0% | 64.7% |
| 2724032 | 708.1.2.2 ↗ | beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › SelR | 0.52 | 40.0 | 2.74e-01 | 92.5% | 49.1% |
| 1933331 | 2.1.1.78 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PCB_OB | 0.52 | 45.0 | 3.43e-01 | 100.0% | 70.5% |
| 4966836 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.51 | 43.0 | 3.94e-01 | 100.0% | 74.5% |
| 4459239 | 3585.1.1.0 ↗ | a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain | 0.51 | 35.0 | 3.11e-01 | 85.0% | 60.0% |
D2
medium
residues 140-266
D3
medium
residues 740-855
D4
medium
residues 935-997
Domain cluster:
rep: NC_048706.1__YP_009838075.1__HWB61_gp62__00018__D123-173