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SR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00375
Bact-VirSR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00375
Identity
- Kingdom:
- phage
Quality
72.3
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 7-64
Domain cluster:
representative
CATH (40)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2id3A01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.67 | 47.0 | 5.08e-01 | 100.0% | 87.8% |
| 8b6jF01 | 1.10.287.20 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Ubiquinol-cytochrome C reductase hinge domain | 0.67 | 47.0 | 4.48e-01 | 74.1% | 94.0% |
| 3d5lA03 | 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 | 0.66 | 49.0 | 5.16e-01 | 100.0% | 90.4% |
| 5fgzA02 | 1.10.3810.10 | Mainly Alpha › Orthogonal Bundle › Penicillin binding protein transpeptidase fold › Biosynthetic peptidoglycan transglycosylase-like | 0.64 | 49.0 | 3.64e-01 | 87.9% | 34.4% |
| 4bjmC00 | 1.20.58.1680 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.63 | 52.0 | 3.57e-01 | 93.1% | 36.3% |
| 3ehmA03 | 1.20.120.840 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SusD-like, tetratrico peptide repeats domain | 0.63 | 46.0 | 3.75e-01 | 81.0% | 97.5% |
| 1t9kA01 | 1.20.120.420 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 | 0.62 | 49.0 | 3.81e-01 | 91.4% | 38.6% |
| 2v6yA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.62 | 43.0 | 3.91e-01 | 100.0% | 56.0% |
| 1luwA01 | 1.10.287.990 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain | 0.61 | 40.0 | 3.90e-01 | 100.0% | 60.9% |
| 2doeA00 | 1.10.10.440 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain | 0.61 | 45.0 | 4.07e-01 | 100.0% | 56.6% |
| 2e62A01 | 6.10.140.420 | Special › Helix non-globular › Helix Hairpins › | 0.61 | 46.0 | 4.89e-01 | 98.3% | 92.3% |
| 2rklF00 | 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 | 0.60 | 38.0 | 3.98e-01 | 100.0% | 71.2% |
| 1u9pA00 | 1.10.1220.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like | 0.60 | 45.0 | 3.89e-01 | 84.5% | 67.7% |
| 2e5yA02 | 1.20.5.440 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › ATP synthase delta/epsilon subunit, C-terminal domain | 0.59 | 41.0 | 4.54e-01 | 100.0% | 93.3% |
| 2khmA01 | 1.10.10.1350 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain | 0.59 | 48.0 | 4.03e-01 | 96.6% | 63.0% |
| 1kl9A02 | 1.10.150.190 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Translation initiation factor 2; subunit 1; domain 2 | 0.58 | 43.0 | 3.88e-01 | 86.2% | 55.4% |
| 3tjmA02 | 1.10.1470.20 | Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 | 0.58 | 46.0 | 3.97e-01 | 86.2% | 61.1% |
| 1z21A00 | 1.10.10.1000 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Type III secretion system virulence factor YopR, core domain | 0.58 | 42.0 | 3.69e-01 | 100.0% | 50.0% |
| 2rkhA02 | 1.20.1280.20 | Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain | 0.57 | 43.0 | 3.91e-01 | 100.0% | 60.5% |
| 2lfhA00 | 4.10.280.10 | Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain | 0.57 | 38.0 | 3.65e-01 | 70.7% | 58.8% |
| 4e6nA02 | 6.10.140.1010 | Special › Helix non-globular › Helix Hairpins › | 0.57 | 43.0 | 4.12e-01 | 100.0% | 71.2% |
| 2g7lA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.56 | 45.0 | 3.20e-01 | 96.6% | 27.4% |
| 3umcD02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.55 | 48.0 | 4.41e-01 | 100.0% | 100.0% |
| 3hr0B01 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.55 | 41.0 | 3.72e-01 | 100.0% | 59.5% |
| 4aflA00 | 6.10.140.1740 | Special › Helix non-globular › Helix Hairpins › | 0.55 | 43.0 | 3.52e-01 | 100.0% | 48.0% |
| 2ve7A02 | 6.10.250.1950 | Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.54 | 37.0 | 2.99e-01 | 79.3% | 34.4% |
| 3favD00 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.54 | 42.0 | 3.81e-01 | 100.0% | 62.8% |
| 4uqvF02 | 3.90.1150.10 | Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 | 0.54 | 40.0 | 3.02e-01 | 81.0% | 55.2% |
| 2qsbA00 | 1.20.1440.50 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like | 0.54 | 47.0 | 4.14e-01 | 98.3% | 96.5% |
| 2f33A03 | 1.10.238.10 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand | 0.54 | 44.0 | 3.96e-01 | 98.3% | 72.4% |
| 3umgA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.54 | 45.0 | 4.26e-01 | 96.6% | 93.0% |
| 2gtsA00 | 1.10.287.850 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain | 0.53 | 43.0 | 3.93e-01 | 93.1% | 66.2% |
| 4cc9B00 | 1.20.5.4730 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.53 | 41.0 | 3.52e-01 | 86.2% | 60.2% |
| 2af6A02 | 6.10.140.450 | Special › Helix non-globular › Helix Hairpins › | 0.52 | 39.0 | 3.88e-01 | 84.5% | 100.0% |
| 2i7aA00 | 1.10.238.10 | Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand | 0.52 | 45.0 | 3.33e-01 | 100.0% | 68.8% |
| 2ic6A00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.51 | 43.0 | 4.01e-01 | 100.0% | 74.6% |
| 1gvnA00 | 1.10.8.130 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.51 | 42.0 | 3.69e-01 | 91.4% | 73.6% |
| 6mh4A03 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.51 | 37.0 | 3.45e-01 | 81.0% | 63.3% |
| 3beeA00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.50 | 38.0 | 3.36e-01 | 87.9% | 53.8% |
| 3l8kA01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.50 | 43.0 | 2.90e-01 | 94.8% | 53.9% |
ECOD (46)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4160987 | 186.1.1.1 ↗ | alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 | 0.67 | 60.0 | 4.85e-01 | 100.0% | 52.7% |
| 4992091 | 2004.1.1.42 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE | 0.67 | 54.0 | 3.22e-01 | 100.0% | 11.3% |
| 3260703 | 142.1.1.5 ↗ | alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › SRI | 0.66 | 49.0 | 4.41e-01 | 79.3% | 61.3% |
| 3893232 | 4082.1.1.0 ↗ | alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain | 0.64 | 43.0 | 3.42e-01 | 70.7% | 34.2% |
| 5082325 | 3705.1.1.3 ↗ | alpha arrays › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › Phage_holin_6_1 | 0.64 | 53.0 | 5.01e-01 | 96.6% | 77.1% |
| 3420318 | 604.16.1.0 ↗ | alpha bundles › Spectrin repeat-like › Hypothetical membrane protein Ta0354, soluble domain › Hypothetical membrane protein Ta0354, soluble domain | 0.62 | 55.0 | 4.62e-01 | 100.0% | 62.0% |
| 165995 | 604.12.1.1 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT | 0.62 | 43.0 | 3.91e-01 | 100.0% | 56.0% |
| 3588595 | 101.35.1.4 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 | 0.61 | 47.0 | 4.86e-01 | 100.0% | 92.7% |
| 3599587 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.61 | 46.0 | 3.27e-01 | 81.0% | 54.6% |
| 5040843 | 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 | 0.61 | 45.0 | 3.80e-01 | 94.8% | 47.4% |
| 5074554 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.61 | 47.0 | 3.34e-01 | 86.2% | 28.2% |
| 5068596 | 2006.1.1.1 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase | 0.61 | 45.0 | 3.11e-01 | 87.9% | 21.3% |
| 4981299 | 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 | 0.61 | 43.0 | 3.55e-01 | 87.9% | 43.0% |
| 4072060 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.61 | 53.0 | 3.22e-01 | 100.0% | 48.4% |
| 3668020 | 131.1.1.12 ↗ | alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_4 | 0.60 | 51.0 | 3.57e-01 | 100.0% | 47.8% |
| 4003051 | 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 | 0.60 | 44.0 | 4.23e-01 | 87.9% | 69.2% |
| 5061320 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.60 | 41.0 | 3.72e-01 | 98.3% | 52.5% |
| 4996376 | 3352.1.1.2 ↗ | alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › PMT_2 | 0.60 | 43.0 | 2.61e-01 | 75.9% | 94.3% |
| 3190824 | 166.1.1.0 ↗ | alpha superhelices › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C › 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C | 0.60 | 40.0 | 3.75e-01 | 70.7% | 88.0% |
| 4175597 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.59 | 51.0 | 3.14e-01 | 100.0% | 47.4% |
| 3281737 | 101.1.1.5 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › TetR_N | 0.59 | 48.0 | 3.75e-01 | 100.0% | 40.8% |
| 4997121 | 101.1.2.136 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_20 | 0.59 | 50.0 | 3.52e-01 | 98.3% | 32.1% |
| 3794529 | 148.1.3.193 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › TRAP-gamma | 0.58 | 45.0 | 3.37e-01 | 86.2% | 92.9% |
| 5049212 | 242.1.1.7 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 | 0.58 | 43.0 | 3.16e-01 | 100.0% | 28.0% |
| 3390920 | 103.4.1.0 ↗ | alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein | 0.58 | 43.0 | 3.70e-01 | 81.0% | 53.7% |
| 5038339 | 5058.1.1.2 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st | 0.58 | 43.0 | 3.78e-01 | 94.8% | 54.1% |
| 3420021 | 101.1.1.121 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 | 0.57 | 46.0 | 3.70e-01 | 100.0% | 43.2% |
| 3399070 | 4082.1.1.1 ↗ | alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain › Hairy_orange | 0.57 | 42.0 | 4.30e-01 | 100.0% | 81.8% |
| 3311071 | 5063.1.1.13 ↗ | alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Myb_DNA-bind_3 | 0.57 | 45.0 | 4.65e-01 | 94.8% | 100.0% |
| 5020110 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.56 | 44.0 | 3.62e-01 | 100.0% | 48.0% |
| 3689697 | 605.4.1.8 ↗ | alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › MARVEL | 0.56 | 41.0 | 3.54e-01 | 100.0% | 50.0% |
| 3513005 | 174.1.1.0 ↗ | few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain | 0.56 | 50.0 | 3.80e-01 | 100.0% | 99.3% |
| 5032563 | 601.7.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain | 0.54 | 45.0 | 3.78e-01 | 100.0% | 50.4% |
| 3737750 | 109.4.1.255 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_22 | 0.54 | 47.0 | 3.47e-01 | 98.3% | 46.5% |
| 3248423 | 109.42.1.1 ↗ | alpha superhelices › Repetitive alpha hairpins › E3 ubiquitin-protein ligase SHPRH first helical domain › E3 ubiquitin-protein ligase SHPRH first helical domain › SHPRH_helical-1st | 0.53 | 46.0 | 3.21e-01 | 100.0% | 90.7% |
| 4034571 | 632.19.1.3 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 | 0.53 | 43.0 | 3.96e-01 | 89.7% | 89.3% |
| 3507551 | 192.5.1.0 ↗ | alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat | 0.52 | 42.0 | 3.54e-01 | 100.0% | 52.6% |
| 3839108 | 310.2.1.65 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › MotA_ExbB | 0.52 | 47.0 | 3.66e-01 | 100.0% | 77.6% |
| 4525456 | 864.1.1.2 ↗ | a+b two layers › DLC › DLC › DLC › Tctex-1 | 0.52 | 40.0 | 3.40e-01 | 93.1% | 94.8% |
| 3291377 | 605.1.1.4 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 | 0.52 | 41.0 | 3.47e-01 | 86.2% | 77.9% |
| 3334694 | 101.1.1.121 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 | 0.51 | 41.0 | 3.78e-01 | 100.0% | 70.6% |
| 3367703 | 101.1.1.121 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 | 0.51 | 41.0 | 3.40e-01 | 100.0% | 48.0% |
| 3806393 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.51 | 41.0 | 4.01e-01 | 100.0% | 90.8% |
| 3388736 | 3922.1.1.0 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 | 0.51 | 43.0 | 3.28e-01 | 96.6% | 79.3% |
| 3376651 | 101.1.1.121 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 | 0.51 | 40.0 | 3.06e-01 | 100.0% | 33.7% |
| 3302726 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.50 | 40.0 | 3.05e-01 | 89.7% | 50.7% |