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PLM4_65_b1_redo_sep16_scaffold_0_prodigal-single.1__X__X__00251
Bact-VirPLM4_65_b1_redo_sep16_scaffold_0_prodigal-single.1__X__X__00251
Identity
- Kingdom:
- phage
Quality
72.7
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 390-480
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2vs0A00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.73 | 38.0 | 4.03e-01 | 100.0% | 56.1% |
| 2c42A06 | 3.40.50.970 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains | 0.67 | 54.0 | 3.58e-01 | 100.0% | 20.8% |
| 2yfaA02 | 1.20.1440.210 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › | 0.65 | 59.0 | 5.43e-01 | 100.0% | 95.7% |
| 3kavA00 | 1.20.1270.360 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.65 | 59.0 | 5.70e-01 | 100.0% | 96.1% |
| 5xfaA04 | 1.20.1440.230 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain | 0.64 | 54.0 | 5.57e-01 | 92.3% | 97.6% |
| 7ldgA00 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.64 | 44.0 | 3.33e-01 | 70.3% | 75.0% |
| 2e8gA01 | 1.20.1440.150 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › | 0.61 | 53.0 | 4.86e-01 | 100.0% | 96.8% |
| 3di2A00 | 1.20.1250.50 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.58 | 48.0 | 4.50e-01 | 96.7% | 72.2% |
| 3rq9A00 | 1.10.287.2500 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.57 | 34.0 | 3.67e-01 | 98.9% | 69.2% |
| 6yttA01 | 1.10.8.190 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1 | 0.57 | 38.0 | 3.72e-01 | 97.8% | 62.0% |
| 6wk3A00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.56 | 46.0 | 4.02e-01 | 93.4% | 95.2% |
| 1i36A02 | 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 | 0.55 | 39.0 | 3.83e-01 | 74.7% | 99.0% |
| 3m9vA03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.54 | 47.0 | 4.02e-01 | 100.0% | 86.0% |
| 8cdaC01 | 1.10.540.10 | Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain | 0.54 | 36.0 | 3.39e-01 | 82.4% | 53.0% |
| 7craA02 | 1.20.58.1480 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.53 | 40.0 | 4.06e-01 | 98.9% | 78.3% |
| 1a41A02 | 1.20.120.380 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 | 0.52 | 33.0 | 3.30e-01 | 100.0% | 60.6% |
| 1r2jA03 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.52 | 45.0 | 3.96e-01 | 100.0% | 76.4% |
| 2fe1A00 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.50 | 33.0 | 2.97e-01 | 76.9% | 46.9% |
ECOD (26)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4033601 | 3843.1.1.0 ↗ | alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K | 0.76 | 34.0 | 3.42e-01 | 100.0% | 40.0% |
| 2908177 | 633.11.1.1 ↗ | alpha bundles › Bromodomain-like › Nqo1C-terminal domain-like › Nqo1C-terminal domain-like › NADH_4Fe-4S | 0.70 | 57.0 | 6.00e-01 | 98.9% | 98.8% |
| 4961594 | 633.11.1.1 ↗ | alpha bundles › Bromodomain-like › Nqo1C-terminal domain-like › Nqo1C-terminal domain-like › NADH_4Fe-4S | 0.66 | 56.0 | 5.63e-01 | 97.8% | 92.2% |
| 3783029 | 633.31.1.0 ↗ | alpha bundles › Bromodomain-like › Four-helical bundle insertion domain in pyruvate-ferredoxin oxidoreductase › Four-helical bundle insertion domain in pyruvate-ferredoxin oxidoreductase | 0.65 | 52.0 | 5.53e-01 | 90.1% | 100.0% |
| 3227345 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.61 | 55.0 | 4.83e-01 | 100.0% | 92.6% |
| 4966251 | 2006.1.4.50 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › DUF3368 | 0.60 | 42.0 | 3.32e-01 | 71.4% | 99.5% |
| 3221003 | 601.54.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › low CO2-inducible protein LCI1 › low CO2-inducible protein LCI1 | 0.59 | 52.0 | 4.39e-01 | 100.0% | 81.9% |
| 3219299 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.58 | 51.0 | 4.50e-01 | 100.0% | 90.7% |
| 3710934 | 633.2.1.0 ↗ | alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein | 0.58 | 46.0 | 4.64e-01 | 85.7% | 97.8% |
| 3570202 | 601.4.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains | 0.58 | 42.0 | 4.09e-01 | 75.8% | 70.0% |
| 1481165 | 633.18.1.1 ↗ | alpha bundles › Bromodomain-like › ExoU toxin C-terminal domain › ExoU toxin C-terminal domain › ExoU_C | 0.57 | 45.0 | 4.75e-01 | 94.5% | 100.0% |
| 4978889 | 633.21.1.0 ↗ | alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 | 0.56 | 46.0 | 4.70e-01 | 97.8% | 95.6% |
| 3928218 | 135.1.1.1 ↗ | alpha arrays › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › Transducin (alpha subunit), insertion domain › G-alpha | 0.55 | 47.0 | 4.41e-01 | 100.0% | 86.7% |
| 3824205 | 109.4.1.883 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 | 0.55 | 42.0 | 3.51e-01 | 82.4% | 86.7% |
| 3513440 | 6155.1.1.2 ↗ | alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop | 0.54 | 40.0 | 3.72e-01 | 79.1% | 78.3% |
| 5053233 | 101.1.4.0 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like | 0.54 | 44.0 | 4.54e-01 | 92.3% | 97.6% |
| 3869130 | 604.12.1.72 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › OSTMP1 | 0.53 | 36.0 | 3.64e-01 | 70.3% | 90.5% |
| 5059993 | 601.33.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain | 0.53 | 38.0 | 3.72e-01 | 75.8% | 68.7% |
| 4606907 | 192.17.1.0 ↗ | alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like | 0.53 | 42.0 | 3.86e-01 | 97.8% | 64.8% |
| 4665790 | 563.1.1.1 ↗ | alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP | 0.51 | 46.0 | 3.58e-01 | 100.0% | 46.2% |
| 3694080 | 3758.1.1.0 ↗ | alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins | 0.51 | 44.0 | 3.06e-01 | 98.9% | 81.5% |
| 3786411 | 592.1.1.1 ↗ | alpha arrays › PWI domain-like › PWI domain › PWI domain › PWI | 0.51 | 39.0 | 3.80e-01 | 96.7% | 74.8% |
| 2596887 | 5001.1.1.0 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like | 0.50 | 43.0 | 3.03e-01 | 100.0% | 88.7% |
| 3667987 | 1079.1.1.0 ↗ | alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA | 0.50 | 44.0 | 3.47e-01 | 100.0% | 69.0% |
| 4989367 | 601.18.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 | 0.50 | 35.0 | 3.48e-01 | 72.5% | 84.2% |
| 5009917 | 304.139.1.2 ↗ | a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs | 0.50 | 44.0 | 3.01e-01 | 98.9% | 52.2% |
D2
medium
residues 37-162_559-602_675-705
Domain cluster:
representative
D3
medium
residues 163-235
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3c0wA01 | 3.10.28.10 | Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases | 0.57 | 40.0 | 3.40e-01 | 95.9% | 44.2% |
| 1nj8A03 | 3.30.110.30 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › C-terminal domain of ProRS | 0.57 | 33.0 | 3.59e-01 | 89.0% | 68.9% |
| 1xzwA01 | 2.60.40.380 | Mainly Beta › Sandwich › Immunoglobulin-like › Purple acid phosphatase-like, N-terminal | 0.52 | 39.0 | 3.55e-01 | 93.2% | 59.2% |
| 2ab5B01 | 3.10.28.10 | Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases | 0.52 | 37.0 | 3.22e-01 | 79.5% | 78.1% |
| 3g87A02 | 3.30.70.250 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding | 0.51 | 35.0 | 3.64e-01 | 71.2% | 77.6% |
| 2ctfA00 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.51 | 35.0 | 3.21e-01 | 93.2% | 52.0% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5072185 | 242.1.1.0 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases | 0.63 | 43.0 | 3.95e-01 | 91.8% | 53.7% |
| 4136119 | 328.6.1.1 ↗ | a+b two layers › IF3-like › EPT/RTPC-like › EPT/RTPC-like › EPSP_synthase | 0.61 | 41.0 | 2.91e-01 | 89.0% | 22.2% |
| 3664362 | 101.15.1.0 ↗ | alpha arrays › HTH › LysM domain › LysM domain | 0.57 | 37.0 | 3.24e-01 | 89.0% | 41.7% |
| 5042374 | 882.1.1.4 ↗ | a+b two layers › Ribosomal protein L5 › Ribosomal protein L5 › Ribosomal protein L5 › RNA_binding | 0.56 | 40.0 | 3.42e-01 | 94.5% | 45.2% |
| 4516768 | 242.1.1.2 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 | 0.55 | 40.0 | 3.58e-01 | 94.5% | 52.7% |
| 3735008 | 101.1.2.381 ↗ | alpha arrays › HTH › HTH › winged helix domain › UBR1-like_wing | 0.54 | 37.0 | 3.36e-01 | 84.9% | 49.5% |
| 4972661 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.54 | 38.0 | 2.50e-01 | 75.3% | 46.8% |
| 3782918 | 101.1.2.381 ↗ | alpha arrays › HTH › HTH › winged helix domain › UBR1-like_wing | 0.53 | 36.0 | 3.30e-01 | 84.9% | 51.0% |
| 286927 | 242.1.1.1 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_1 | 0.52 | 38.0 | 3.21e-01 | 79.5% | 73.1% |
| 3593279 | 223.1.1.0 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains | 0.52 | 42.0 | 3.04e-01 | 97.3% | 60.7% |
| 4671157 | 323.1.1.3 ↗ | a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding | 0.52 | 40.0 | 2.75e-01 | 89.0% | 23.9% |
| 3968911 | 304.58.1.0 ↗ | a+b two layers › Alpha-beta plaits › FepE-like › FepE-like | 0.51 | 40.0 | 2.84e-01 | 90.4% | 39.6% |
| 5917 | 327.11.2.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 | 0.51 | 35.0 | 3.35e-01 | 93.2% | 58.9% |
| 5251 | 304.8.1.7 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ALS_ss_C | 0.51 | 33.0 | 3.18e-01 | 94.5% | 56.6% |
| 3256424 | 101.1.2.381 ↗ | alpha arrays › HTH › HTH › winged helix domain › UBR1-like_wing | 0.50 | 35.0 | 3.28e-01 | 84.9% | 56.8% |
| 4013928 | 2003.1.5.8 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Ubie_methyltran | 0.50 | 35.0 | 2.44e-01 | 75.3% | 88.4% |
D4
medium
residues 706-812_830-918