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LSDeep1_scaffold_41_prodigal-single.1__X__X__00064
Bact-VirLSDeep1_scaffold_41_prodigal-single.1__X__X__00064
Identity
- Kingdom:
- phage
Quality
96.1
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
medium
residues 1-80_120-170
Domain cluster:
representative
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3kbtA00 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.63 | 54.0 | 4.20e-01 | 93.1% | 50.4% |
| 2zdiB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.62 | 38.0 | 4.26e-01 | 78.6% | 77.4% |
| 2gd5A00 | 6.10.140.1230 | Special › Helix non-globular › Helix Hairpins › | 0.60 | 46.0 | 4.55e-01 | 96.2% | 74.6% |
| 4djbA00 | 3.30.70.2870 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 | 0.58 | 35.0 | 3.68e-01 | 87.0% | 66.9% |
| 1bd3A00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.56 | 29.0 | 2.46e-01 | 90.8% | 29.5% |
| 1i5eA00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.55 | 29.0 | 2.47e-01 | 91.6% | 30.8% |
| 2zdiC00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.53 | 40.0 | 3.82e-01 | 77.1% | 88.5% |
| 2oarB00 | 1.10.1200.120 | Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Large-conductance mechanosensitive channel, MscL; domain 1 | 0.53 | 34.0 | 3.48e-01 | 81.7% | 66.4% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3268288 | 5001.1.1.5 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 | 0.66 | 39.0 | 3.02e-01 | 78.6% | 26.7% |
| 4934732 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.62 | 33.0 | 3.52e-01 | 73.3% | 58.3% |
| 3804378 | 263.1.1.1 ↗ | a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF | 0.60 | 25.0 | 3.35e-01 | 86.3% | 69.3% |
| 4987009 | 3837.1.1.1 ↗ | alpha bundles › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › DUF6847 | 0.60 | 35.0 | 3.41e-01 | 84.0% | 50.7% |
| 3998938 | 6110.1.1.1 ↗ | alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 | 0.60 | 43.0 | 2.91e-01 | 74.8% | 75.1% |
| 3547409 | 604.1.1.153 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF4455 | 0.58 | 48.0 | 4.14e-01 | 87.0% | 71.0% |
| 3845971 | 3937.1.1.1 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Connexin | 0.57 | 47.0 | 3.97e-01 | 90.1% | 56.0% |
| 3742561 | 7573.1.1.4 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase | 0.56 | 30.0 | 2.53e-01 | 91.6% | 30.2% |
| 3690229 | 7573.1.1.4 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase | 0.56 | 30.0 | 2.54e-01 | 91.6% | 31.2% |
| 3841567 | 7573.1.1.4 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase | 0.56 | 30.0 | 2.50e-01 | 90.8% | 30.7% |
| 3598920 | 7573.1.1.0 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like | 0.56 | 30.0 | 2.49e-01 | 91.6% | 29.8% |
| 1834407 | 3218.1.1.1 ↗ | a+b duplicates or obligate multimers › small terminase oligomerization domain › small terminase oligomerization domain › small terminase oligomerization domain › Terminase_2 | 0.55 | 25.0 | 3.12e-01 | 91.6% | 69.2% |
| 3471111 | 7573.1.1.4 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase | 0.55 | 29.0 | 2.44e-01 | 91.6% | 29.3% |
| 3398317 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.54 | 41.0 | 3.84e-01 | 78.6% | 75.0% |
| 5069467 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.54 | 42.0 | 4.05e-01 | 79.4% | 86.2% |
| 3491256 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.54 | 41.0 | 3.73e-01 | 80.2% | 89.1% |
| 4996551 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.54 | 41.0 | 4.05e-01 | 79.4% | 86.4% |
| 5022380 | 3755.3.1.632 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Prefoldin | 0.54 | 41.0 | 4.02e-01 | 79.4% | 94.3% |
| 3287147 | 4177.1.1.0 ↗ | alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like | 0.53 | 47.0 | 4.26e-01 | 93.1% | 80.0% |
| 3817420 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.53 | 41.0 | 3.70e-01 | 80.2% | 92.6% |
| 3329453 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.53 | 40.0 | 3.92e-01 | 79.4% | 83.4% |
| 4938398 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.52 | 40.0 | 3.84e-01 | 78.6% | 82.8% |
| 5036589 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.52 | 40.0 | 3.96e-01 | 79.4% | 79.3% |
| 4303742 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.51 | 39.0 | 4.07e-01 | 78.6% | 88.3% |
| 2755218 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.51 | 37.0 | 3.23e-01 | 98.5% | 48.1% |
| 3488760 | 3937.1.1.0 ↗ | alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 | 0.51 | 43.0 | 3.32e-01 | 92.4% | 52.8% |
| 4942428 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.50 | 38.0 | 3.82e-01 | 78.6% | 78.5% |
| 3515407 | 192.2.1.2 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin | 0.50 | 40.0 | 3.63e-01 | 82.4% | 97.0% |
D2
medium
residues 83-113
Domain cluster:
representative
CATH (21)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3gw6A03 | 3.30.2460.10 | Alpha Beta › 2-Layer Sandwich › Endo-n-acetylneuraminidase fold › Endo-n-acetylneuraminidase domain | 0.69 | 56.0 | 4.81e-01 | 100.0% | 71.9% |
| 2i6gB00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.66 | 47.0 | 2.99e-01 | 90.3% | 14.1% |
| 4dzdA02 | 3.30.70.1210 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 | 0.64 | 47.0 | 3.41e-01 | 96.8% | 30.9% |
| 3wa7A00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.63 | 45.0 | 2.55e-01 | 90.3% | 6.0% |
| 1p1hB01 | 3.30.2360.10 | Alpha Beta › 2-Layer Sandwich › Glyceraldehyde-3-phosphate dehydrogenase-like fold › Glyceraldehyde-3-phosphate dehydrogenase-like domain | 0.63 | 45.0 | 2.88e-01 | 83.9% | 24.4% |
| 3ggdA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.63 | 44.0 | 2.73e-01 | 90.3% | 11.9% |
| 1fm2B03 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.63 | 44.0 | 3.69e-01 | 100.0% | 37.9% |
| 1w2wB00 | 3.40.50.10470 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Translation initiation factor eif-2b; domain 2 | 0.62 | 44.0 | 2.85e-01 | 83.9% | 18.3% |
| 4yfbC02 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.61 | 47.0 | 3.63e-01 | 100.0% | 32.1% |
| 3vwdA00 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.60 | 47.0 | 2.93e-01 | 100.0% | 61.7% |
| 1f8vC00 | 2.60.120.20 | Mainly Beta › Sandwich › Jelly Rolls › | 0.58 | 43.0 | 2.60e-01 | 100.0% | 9.3% |
| 3zqmA00 | 6.10.140.2160 | Special › Helix non-globular › Helix Hairpins › | 0.57 | 44.0 | 3.72e-01 | 93.5% | 61.0% |
| 4fxdA05 | 3.90.1600.10 | Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain | 0.57 | 41.0 | 2.86e-01 | 93.5% | 21.4% |
| 3gveA00 | 3.60.21.10 | Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases | 0.57 | 43.0 | 2.53e-01 | 100.0% | 10.2% |
| 5ek8A01 | 2.60.40.3330 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.56 | 38.0 | 2.77e-01 | 87.1% | 20.6% |
| 2byvE05 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.53 | 37.0 | 2.96e-01 | 87.1% | 31.6% |
| 2v3sA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.53 | 36.0 | 2.81e-01 | 80.6% | 33.3% |
| 4gs5A01 | 3.40.50.12780 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain | 0.52 | 36.0 | 2.28e-01 | 90.3% | 87.3% |
| 6nvxB02 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.52 | 39.0 | 3.27e-01 | 100.0% | 42.9% |
| 5i4nA01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.51 | 38.0 | 2.91e-01 | 93.5% | 31.5% |
| 4wksC02 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.50 | 39.0 | 3.20e-01 | 100.0% | 42.7% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3562933 | 198.1.1.4 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like › DUF3456 | 0.79 | 59.0 | 3.83e-01 | 90.3% | 18.7% |
| 4485729 | 1.1.5.44 ↗ | beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › SecDF_P1_head | 0.78 | 68.0 | 4.26e-01 | 90.3% | 19.3% |
| 3653356 | 206.1.1.1 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase | 0.75 | 56.0 | 3.19e-01 | 87.1% | 7.4% |
| 3685597 | 2003.1.5.73 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 | 0.69 | 51.0 | 3.16e-01 | 90.3% | 12.3% |
| 3561667 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.65 | 45.0 | 2.53e-01 | 100.0% | 5.2% |
| None | — | 0.65 | 47.0 | 3.02e-01 | 87.1% | 15.1% | |
| 3781061 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.64 | 46.0 | 3.58e-01 | 83.9% | 30.6% |
| 4027774 | 710.1.1.1 ↗ | beta complex topology › Obg GTP-binding protein N-terminal domain › Obg GTP-binding protein N-terminal domain › Obg GTP-binding protein N-terminal domain › GTP1_OBG | 0.64 | 53.0 | 3.40e-01 | 80.6% | 16.1% |
| 3815772 | 109.4.1.1580 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT, HAT_Syf1_CNRKL1_C, HAT_Syf1_CNRKL1_N, HAT_PRP39_N, HAT_PRP39_C | 0.64 | 47.0 | 2.55e-01 | 100.0% | 4.3% |
| 3901459 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.63 | 44.0 | 2.39e-01 | 87.1% | 3.6% |
| 4976856 | 2003.1.5.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases | 0.62 | 49.0 | 2.87e-01 | 90.3% | 10.3% |
| 4233683 | 171.1.1.1 ↗ | alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3 | 0.62 | 47.0 | 2.91e-01 | 96.8% | 47.3% |
| 3591474 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.61 | 46.0 | 2.86e-01 | 100.0% | 13.6% |
| 3789535 | 7527.1.1.1 ↗ | a/b three-layered sandwiches › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE-like/CoA-transferase family III (CaiB/BaiF) › SurE | 0.61 | 45.0 | 2.74e-01 | 100.0% | 11.7% |
| 4315296 | 5054.1.1.7 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › KdpA | 0.60 | 42.0 | 2.92e-01 | 90.3% | 20.0% |
| 3269422 | 881.1.1.0 ↗ | a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like | 0.59 | 42.0 | 2.54e-01 | 77.4% | 8.9% |
| 3227523 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.59 | 47.0 | 3.20e-01 | 100.0% | 51.5% |
| 1828346 | 1063.1.1.1 ↗ | alpha complex topology › Tegument protein U14 › Tegument protein U14 › Tegument protein U14 › Herpes_pp85 | 0.58 | 40.0 | 2.31e-01 | 100.0% | 6.2% |
| 3067939 | 3077.1.1.1 ↗ | beta sandwiches › Heme-binding protein HmuY-related › Heme-binding protein HmuY-related › Heme-binding protein HmuY-related › HmuY | 0.57 | 43.0 | 2.80e-01 | 87.1% | 31.2% |
| 3712672 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.55 | 39.0 | 3.20e-01 | 87.1% | 35.0% |
| 3456292 | 2.1.1.134 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › GIDE | 0.54 | 40.0 | 2.73e-01 | 96.8% | 26.2% |
| 3477384 | 327.5.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins | 0.54 | 38.0 | 2.20e-01 | 83.9% | 6.0% |
| 3924089 | 198.1.1.4 ↗ | alpha arrays › Saposin-like › Saposin-like › Saposin-like › DUF3456 | 0.53 | 39.0 | 2.76e-01 | 90.3% | 20.0% |
| 3563894 | 59.1.4.2 ↗ | beta complex topology › triple barrel › triple barrel › TFIID subunits TAF1-TAF7 › DUF3591 | 0.53 | 39.0 | 2.23e-01 | 93.5% | 7.3% |
| 1723386 | 330.1.1.0 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like | 0.53 | 38.0 | 3.71e-01 | 87.1% | 63.6% |
| 1560725 | 3974.1.1.1 ↗ | beta duplicates or obligate multimers › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA2_N | 0.51 | 39.0 | 3.31e-01 | 90.3% | 83.9% |
| 4023558 | 4246.1.1.2 ↗ | a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 | 0.51 | 40.0 | 2.36e-01 | 93.5% | 35.4% |
| 3786528 | 109.4.1.87 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec6 | 0.50 | 39.0 | 2.10e-01 | 100.0% | 4.9% |