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SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00117
Bact-VirSR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00117
Identity
- Kingdom:
- phage
Quality
91.2
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 5-82
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3kbgA02 | 2.40.50.740 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Ribosomal protein S4, central domain | 0.62 | 36.0 | 4.26e-01 | 70.5% | 84.9% |
| 4lvnA00 | 3.40.50.200 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain | 0.51 | 43.0 | 2.91e-01 | 100.0% | 80.7% |
D2
medium
residues 101-137
Domain cluster:
representative
CATH (35)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1dd5A01 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.98 | 90.0 | 6.18e-01 | 100.0% | 33.9% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.97 | 90.0 | 6.07e-01 | 100.0% | 31.6% |
| 2o5iN07 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.96 | 88.0 | 5.96e-01 | 100.0% | 31.9% |
| 5uh5D02 | 1.10.132.30 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain | 0.94 | 84.0 | 5.51e-01 | 100.0% | 26.8% |
| 4kb2A01 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.94 | 83.0 | 5.82e-01 | 100.0% | 33.9% |
| 1zmbA02 | 6.10.170.10 | Special › Helix non-globular › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › | 0.93 | 78.0 | 7.97e-01 | 97.3% | 94.4% |
| 2qm8A03 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.92 | 81.0 | 6.62e-01 | 97.3% | 55.4% |
| 2fe1A00 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.92 | 82.0 | 5.50e-01 | 100.0% | 28.5% |
| 2cazD00 | 6.10.140.820 | Special › Helix non-globular › Helix Hairpins › | 0.89 | 79.0 | 6.69e-01 | 100.0% | 61.7% |
| 2rldA00 | 1.20.1440.60 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence | 0.88 | 79.0 | 5.47e-01 | 100.0% | 32.5% |
| 2p6vA00 | 1.20.120.1110 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › TAFH/NHR1 domain | 0.87 | 73.0 | 5.33e-01 | 94.6% | 36.1% |
| 2nn4A00 | 1.10.287.760 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like | 0.86 | 75.0 | 6.33e-01 | 100.0% | 59.7% |
| 5c8aA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.85 | 74.0 | 5.81e-01 | 100.0% | 48.7% |
| 3iylU02 | 1.10.287.1520 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.85 | 68.0 | 6.12e-01 | 91.9% | 64.2% |
| 6dv2G02 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.85 | 69.0 | 4.40e-01 | 100.0% | 19.0% |
| 3kd3A02 | 1.10.150.210 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 | 0.83 | 70.0 | 6.00e-01 | 97.3% | 60.0% |
| 5b1oA00 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.79 | 66.0 | 5.62e-01 | 100.0% | 73.8% |
| 3qnmA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.78 | 70.0 | 5.21e-01 | 100.0% | 41.1% |
| 1wpbG01 | 1.10.287.680 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.77 | 66.0 | 5.91e-01 | 100.0% | 72.2% |
| 3c8tA01 | 1.10.275.10 | Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) | 0.77 | 67.0 | 4.95e-01 | 100.0% | 62.9% |
| 1yfmA01 | 1.10.275.10 | Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) | 0.77 | 65.0 | 4.54e-01 | 100.0% | 53.2% |
| 3zdmB00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.77 | 65.0 | 6.00e-01 | 100.0% | 80.0% |
| 4asvA00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.77 | 64.0 | 5.12e-01 | 100.0% | 50.6% |
| 1l5jA03 | 3.40.1060.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aconitase; Domain 2 › Aconitase, Domain 2 | 0.74 | 61.0 | 3.97e-01 | 97.3% | 21.4% |
| 1rsoB00 | 1.10.287.650 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain | 0.74 | 62.0 | 5.52e-01 | 100.0% | 71.4% |
| 6t0bc01 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.71 | 56.0 | 4.50e-01 | 97.3% | 43.6% |
| 1r1dA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.70 | 61.0 | 3.71e-01 | 100.0% | 16.5% |
| 2e62A01 | 6.10.140.420 | Special › Helix non-globular › Helix Hairpins › | 0.70 | 56.0 | 5.20e-01 | 100.0% | 80.8% |
| 4cpgA00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.67 | 53.0 | 4.58e-01 | 100.0% | 59.4% |
| 5t1dB00 | 3.10.390.20 | Alpha Beta › Roll › SAND domain › Viral glycoprotein L | 0.67 | 55.0 | 4.07e-01 | 97.3% | 35.4% |
| 2kkmA01 | 1.20.1440.170 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Translation machinery-associated protein 16-like | 0.66 | 51.0 | 3.73e-01 | 100.0% | 32.0% |
| 2j5iA02 | 6.10.250.2850 | Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.64 | 47.0 | 4.71e-01 | 94.6% | 97.4% |
| 1vfrA00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.64 | 56.0 | 3.48e-01 | 100.0% | 17.1% |
| 7yulA01 | 1.10.10.2590 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › BEN domain | 0.62 | 49.0 | 3.81e-01 | 91.9% | 77.6% |
| 3n5lA03 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 50.0 | 4.47e-01 | 97.3% | 73.7% |
ECOD (37)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4057629 | 3869.1.1.1 ↗ | alpha arrays › Mitochondrial 54S ribosomal protein L2 › Mitochondrial 54S ribosomal protein L2 › Mitochondrial 54S ribosomal protein L2 › Ribosomal_L27_C | 0.99 | 92.0 | 5.48e-01 | 100.0% | 17.6% |
| 3691750 | 376.1.1.8 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box | 0.98 | 91.0 | 5.80e-01 | 100.0% | 24.8% |
| 4868479 | 4959.1.1.1 ↗ | a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 | 0.98 | 91.0 | 6.08e-01 | 100.0% | 31.1% |
| 4231910 | 4168.1.1.1 ↗ | alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › HAMP | 0.97 | 89.0 | 6.13e-01 | 100.0% | 33.6% |
| 4620052 | 2004.1.1.5 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran | 0.97 | 90.0 | 5.00e-01 | 100.0% | 10.1% |
| 3842812 | 10.12.1.1 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding | 0.97 | 89.0 | 5.32e-01 | 100.0% | 17.2% |
| 3218210 | 2004.1.1.184 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11 | 0.97 | 89.0 | 5.12e-01 | 100.0% | 13.2% |
| 4641055 | 2004.1.1.6 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran,oligo_HPY | 0.96 | 88.0 | 4.89e-01 | 100.0% | 9.5% |
| 3188198 | 3151.1.1.0 ↗ | alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 | 0.96 | 88.0 | 8.53e-01 | 97.3% | 90.0% |
| 2772104 | 103.1.1.13 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RNA_pol_Rpo13 | 0.96 | 87.0 | 8.17e-01 | 100.0% | 84.1% |
| 3491473 | 192.15.1.3 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core | 0.96 | 83.0 | 6.03e-01 | 94.6% | 38.9% |
| 3200626 | 310.2.1.1 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF | 0.95 | 85.0 | 5.20e-01 | 100.0% | 18.5% |
| 3412555 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.95 | 85.0 | 5.90e-01 | 100.0% | 33.6% |
| 3769584 | 4146.1.1.4 ↗ | alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like › FAM216B | 0.94 | 84.0 | 6.42e-01 | 100.0% | 46.3% |
| 3973870 | 223.1.1.0 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains | 0.94 | 84.0 | 4.94e-01 | 100.0% | 14.5% |
| 3539738 | 10.12.1.1 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding | 0.93 | 85.0 | 5.08e-01 | 100.0% | 16.4% |
| 3988447 | 5043.1.1.0 ↗ | extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like | 0.93 | 83.0 | 7.21e-01 | 100.0% | 67.3% |
| 3244203 | 192.15.1.3 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core | 0.91 | 81.0 | 5.20e-01 | 100.0% | 23.1% |
| 4980120 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.90 | 81.0 | 5.94e-01 | 100.0% | 65.6% |
| 5036455 | 2004.1.1.5 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran | 0.89 | 79.0 | 4.57e-01 | 100.0% | 12.8% |
| 4004355 | 375.1.9.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase | 0.89 | 78.0 | 5.55e-01 | 100.0% | 35.2% |
| 4124570 | 1054.1.1.1 ↗ | alpha bundles › Arginine decarboxylase C-terminal helical extension › Arginine decarboxylase C-terminal helical extension › Arginine decarboxylase C-terminal helical extension › Arg_decarbox_C | 0.88 | 75.0 | 7.12e-01 | 100.0% | 82.2% |
| 3511354 | 4146.1.1.0 ↗ | alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like | 0.87 | 75.0 | 7.39e-01 | 100.0% | 92.5% |
| 3555742 | 103.1.1.0 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain | 0.86 | 75.0 | 5.73e-01 | 100.0% | 43.5% |
| 3187917 | 192.15.1.3 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core | 0.85 | 74.0 | 4.76e-01 | 100.0% | 22.4% |
| 3374816 | 192.15.1.3 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core | 0.85 | 73.0 | 4.62e-01 | 100.0% | 20.0% |
| 4947371 | 192.15.1.0 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains | 0.85 | 75.0 | 5.16e-01 | 100.0% | 30.8% |
| 5042312 | 375.1.9.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase | 0.85 | 74.0 | 5.30e-01 | 100.0% | 35.2% |
| 5043437 | 192.8.1.0 ↗ | alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain | 0.85 | 73.0 | 5.27e-01 | 100.0% | 35.2% |
| 3282520 | 325.1.7.0 ↗ | a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif | 0.84 | 73.0 | 5.96e-01 | 100.0% | 52.9% |
| 3187337 | 630.1.1.0 ↗ | a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain | 0.84 | 71.0 | 4.54e-01 | 100.0% | 20.2% |
| 5065070 | 192.15.1.3 ↗ | alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core | 0.84 | 73.0 | 6.06e-01 | 100.0% | 56.9% |
| 4944191 | 3755.3.1.0 ↗ | alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin | 0.82 | 70.0 | 4.76e-01 | 100.0% | 26.6% |
| 3486312 | 192.7.1.0 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm | 0.82 | 71.0 | 4.96e-01 | 100.0% | 31.1% |
| 3663440 | 109.4.1.359 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo70_C | 0.81 | 68.0 | 3.72e-01 | 97.3% | 6.5% |
| 3479771 | 10.12.1.0 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix | 0.75 | 63.0 | 3.98e-01 | 100.0% | 19.5% |
| 3773906 | 10.12.1.1 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding | 0.74 | 62.0 | 3.90e-01 | 100.0% | 19.1% |