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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00135
Bact-VirRifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00135
Identity
- Kingdom:
- phage
Quality
62.1
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 9-115
Domain cluster:
rep: OP056089.1__UYD72102.1__X__00002__D5-102
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u3eM01 | 3.90.75.20 | Alpha Beta › Alpha-Beta Complex › Homing Intron 3 (I-Ppo) Encoded Endonuclease; Chain A › | 0.74 | 61.0 | 6.13e-01 | 100.0% | 86.8% |
| 3aqlA01 | 3.30.460.10 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 | 0.53 | 36.0 | 3.37e-01 | 70.1% | 85.7% |
| 4z88A00 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.51 | 22.0 | 2.67e-01 | 86.9% | 56.9% |
| 1b77A00 | 3.70.10.10 | Alpha Beta › Box › Proliferating Cell Nuclear Antigen › | 0.51 | 38.0 | 2.98e-01 | 99.1% | 36.4% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4999716 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.59 | 21.0 | 3.46e-01 | 83.2% | 97.1% |
| 2426645 | 375.8.1.1 ↗ | few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta › eIF-5_eIF-2B | 0.57 | 25.0 | 3.24e-01 | 86.9% | 72.7% |
| 3907533 | 64.1.1.0 ↗ | beta meanders › WW domain-like › WW domain › WW domain | 0.53 | 22.0 | 3.13e-01 | 72.9% | 92.5% |
| 3748837 | 330.9.1.1 ↗ | a+b two layers › dsRBD-like › C-terminal domain in LINE-1 ORF1p › C-terminal domain in LINE-1 ORF1p › Tnp_22_dsRBD | 0.52 | 30.0 | 3.35e-01 | 86.0% | 72.5% |
| 5027650 | 4312.1.1.0 ↗ | a+b two layers › RelE-like › RelE-like › RelE-like | 0.52 | 27.0 | 3.31e-01 | 91.6% | 80.0% |
| 5980 | 227.1.1.9 ↗ | a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_PPF | 0.51 | 38.0 | 3.77e-01 | 99.1% | 75.5% |
| 5035483 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.51 | 32.0 | 2.76e-01 | 70.1% | 39.4% |
D2
high
residues 368-427
Domain cluster:
representative
CATH (26)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5d18A00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.74 | 60.0 | 4.13e-01 | 90.0% | 27.7% |
| 2hytA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.73 | 63.0 | 4.45e-01 | 100.0% | 31.6% |
| 3c2bA01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.71 | 53.0 | 5.60e-01 | 83.3% | 100.0% |
| 2f48A03 | 1.10.10.480 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Phosphofructokinase; domain 3 | 0.70 | 55.0 | 5.18e-01 | 88.3% | 96.0% |
| 3gziA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.69 | 57.0 | 4.00e-01 | 93.3% | 29.1% |
| 4jykA01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.68 | 55.0 | 5.63e-01 | 93.3% | 100.0% |
| 4ipaB01 | 3.90.230.10 | Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily | 0.64 | 55.0 | 3.52e-01 | 98.3% | 85.6% |
| 3w6zA02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.63 | 54.0 | 4.37e-01 | 100.0% | 95.0% |
| 1knzA01 | 6.10.280.20 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Rotavirus non-structural protein NSP3, N-terminal domain | 0.62 | 44.0 | 3.65e-01 | 76.7% | 43.1% |
| 2pg4A00 | 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 | 0.60 | 48.0 | 4.34e-01 | 95.0% | 79.1% |
| 1ma1A01 | 1.10.287.990 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain | 0.59 | 44.0 | 4.39e-01 | 81.7% | 81.2% |
| 5nl9A01 | 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 | 0.58 | 44.0 | 4.09e-01 | 88.3% | 63.1% |
| 1tzvA00 | 1.10.940.10 | Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like | 0.58 | 45.0 | 3.59e-01 | 91.7% | 60.3% |
| 4s3mB02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.57 | 45.0 | 3.87e-01 | 91.7% | 66.0% |
| 4jqfA02 | 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 | 45.0 | 4.33e-01 | 95.0% | 100.0% |
| 3lphC00 | 6.10.140.630 | Special › Helix non-globular › Helix Hairpins › | 0.55 | 40.0 | 4.12e-01 | 78.3% | 93.1% |
| 3favD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.55 | 41.0 | 3.77e-01 | 81.7% | 67.9% |
| 2kmuA00 | 1.10.10.1460 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.54 | 43.0 | 4.42e-01 | 96.7% | 100.0% |
| 1vq8P03 | 1.10.1200.60 | Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › | 0.53 | 41.0 | 4.32e-01 | 83.3% | 96.4% |
| 1id1A00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.53 | 38.0 | 2.83e-01 | 76.7% | 48.4% |
| 2ymmA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.53 | 40.0 | 3.83e-01 | 86.7% | 91.8% |
| 3iieB03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.52 | 40.0 | 3.56e-01 | 81.7% | 77.6% |
| 1vw4L02 | 1.10.246.170 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.52 | 41.0 | 3.76e-01 | 95.0% | 63.5% |
| 4zqeA03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.52 | 40.0 | 3.42e-01 | 83.3% | 79.2% |
| 2pbiA02 | 1.10.1240.60 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › | 0.51 | 40.0 | 3.49e-01 | 100.0% | 53.5% |
| 2c83A01 | 3.40.50.11120 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Sialyltransferase, N-terminal GT-B Rossman nucleotide-binding domain | 0.51 | 41.0 | 2.87e-01 | 91.7% | 29.8% |
ECOD (39)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5081163 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.77 | 59.0 | 6.14e-01 | 83.3% | 94.5% |
| 5028153 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.74 | 60.0 | 5.44e-01 | 91.7% | 65.1% |
| 3286383 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.74 | 64.0 | 6.03e-01 | 100.0% | 84.0% |
| 1692421 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.74 | 60.0 | 5.48e-01 | 90.0% | 70.9% |
| 3283805 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.73 | 60.0 | 5.75e-01 | 91.7% | 80.0% |
| 3404571 | 101.1.2.206 ↗ | alpha arrays › HTH › HTH › winged helix domain › SAMD1_WH | 0.72 | 59.0 | 5.42e-01 | 91.7% | 88.7% |
| 4340989 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.71 | 61.0 | 5.75e-01 | 100.0% | 82.7% |
| 3963033 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.69 | 56.0 | 5.48e-01 | 91.7% | 86.2% |
| 3970046 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.69 | 52.0 | 5.18e-01 | 85.0% | 81.5% |
| 1695198 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.69 | 55.0 | 5.35e-01 | 91.7% | 81.2% |
| 3286145 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.69 | 59.0 | 5.57e-01 | 100.0% | 80.0% |
| 5048461 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.68 | 59.0 | 5.32e-01 | 100.0% | 96.5% |
| 3960205 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.68 | 54.0 | 5.01e-01 | 91.7% | 71.2% |
| 3286520 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.68 | 58.0 | 5.68e-01 | 100.0% | 93.8% |
| 1247851 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.67 | 58.0 | 5.36e-01 | 100.0% | 78.2% |
| 3283171 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.66 | 53.0 | 5.10e-01 | 93.3% | 84.3% |
| 5040366 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.66 | 55.0 | 5.52e-01 | 100.0% | 95.0% |
| 3962482 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.66 | 56.0 | 5.52e-01 | 100.0% | 93.8% |
| 5051150 | 2003.1.2.12 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO | 0.64 | 55.0 | 3.45e-01 | 100.0% | 24.9% |
| 3274011 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.64 | 54.0 | 5.30e-01 | 93.3% | 90.8% |
| 3517600 | 632.2.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains | 0.64 | 40.0 | 3.79e-01 | 95.0% | 50.7% |
| 3727213 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.64 | 51.0 | 5.06e-01 | 91.7% | 96.9% |
| 3784238 | 3758.1.1.99 ↗ | alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › Tht1 | 0.64 | 43.0 | 3.82e-01 | 70.0% | 68.2% |
| 3739376 | 101.1.2.24 ↗ | alpha arrays › HTH › HTH › winged helix domain › MAGE | 0.63 | 53.0 | 4.65e-01 | 100.0% | 64.3% |
| 4940432 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.62 | 50.0 | 4.49e-01 | 93.3% | 86.7% |
| 3264568 | 3748.1.1.3 ↗ | extended segments › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › eIF3h_C | 0.61 | 46.0 | 3.76e-01 | 80.0% | 59.0% |
| 3608869 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.60 | 51.0 | 4.39e-01 | 98.3% | 89.0% |
| 3855063 | 219.1.1.15 ↗ | a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › OTU | 0.58 | 45.0 | 3.23e-01 | 86.7% | 83.4% |
| 5082532 | 148.1.3.0 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain | 0.58 | 39.0 | 3.76e-01 | 70.0% | 62.9% |
| 3518933 | 101.1.1.21 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 | 0.58 | 47.0 | 4.67e-01 | 95.0% | 98.5% |
| 3702325 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.58 | 47.0 | 4.90e-01 | 91.7% | 100.0% |
| 3234731 | 101.1.1.21 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 | 0.57 | 47.0 | 4.65e-01 | 96.7% | 92.3% |
| 3598538 | 604.3.1.0 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain | 0.56 | 48.0 | 4.72e-01 | 100.0% | 86.2% |
| 1633634 | 101.1.1.84 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › PUB_1 | 0.56 | 43.0 | 4.20e-01 | 86.7% | 78.5% |
| 3966057 | 4239.2.1.1 ↗ | alpha arrays › DNA polymerase III theta subunit-like › LasR-specific antiactivator (QslA) › LasR-specific antiactivator (QslA) › QslA | 0.55 | 46.0 | 4.07e-01 | 98.3% | 81.1% |
| 5050359 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.53 | 40.0 | 3.82e-01 | 81.7% | 70.0% |
| 5065059 | 604.5.1.0 ↗ | alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) | 0.53 | 45.0 | 4.47e-01 | 98.3% | 90.8% |
| 3431444 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.53 | 41.0 | 4.13e-01 | 95.0% | 100.0% |
| 3896730 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.50 | 43.0 | 3.35e-01 | 96.7% | 90.4% |
D3
medium
residues 141-198
D4
medium
residues 221-359