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SRR1747059_scaffold_22_prodigal-single.1__X__X__00110

Bact-Vir

SRR1747059_scaffold_22_prodigal-single.1__X__X__00110

Identity

Kingdom:
phage

Quality

76.6 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 128-206
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.63 35.0 4.18e-01 92.4% 85.7%
7y8sB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 44.0 4.26e-01 100.0% 66.7%
4me3A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.62 38.0 4.36e-01 92.4% 87.3%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.60 44.0 4.63e-01 100.0% 92.5%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.60 41.0 4.16e-01 91.1% 73.7%
7y8sA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 43.0 4.13e-01 100.0% 65.3%
4pofA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.58 36.0 4.21e-01 89.9% 98.0%
2w5eA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 38.0 3.89e-01 100.0% 71.6%
3a2eA00 3.30.430.20 Alpha Beta › 2-Layer Sandwich › Killer Toxin P4; Chain A › Gnk2 domain, C-X8-C-X2-C motif 0.57 36.0 3.28e-01 79.7% 46.3%
1m0wA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.56 42.0 3.80e-01 100.0% 58.3%
2xomA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 39.0 3.25e-01 100.0% 41.4%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.54 47.0 3.73e-01 100.0% 57.6%
4zohA05 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.53 40.0 3.32e-01 81.0% 68.5%
3nutB02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.53 34.0 2.95e-01 94.9% 40.6%
5hdwA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.53 43.0 3.68e-01 100.0% 55.0%
2pjyC00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.53 37.0 3.78e-01 96.2% 74.7%
1ffvB03 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.52 40.0 3.17e-01 82.3% 71.7%
2irmA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.51 43.0 2.92e-01 100.0% 57.8%
4djhA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 42.0 2.96e-01 96.2% 83.3%
1r4sA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.50 44.0 3.03e-01 100.0% 40.5%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4956457 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 37.0 4.41e-01 93.7% 80.0%
5053500 224.1.1.0 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like 0.67 43.0 3.97e-01 98.7% 52.0%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.66 43.0 4.84e-01 89.9% 94.5%
4951473 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.65 42.0 4.66e-01 89.9% 84.1%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.65 38.0 4.52e-01 87.3% 100.0%
5015713 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.65 44.0 4.87e-01 91.1% 93.3%
4967222 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.64 43.0 4.72e-01 89.9% 90.0%
5067865 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.64 42.0 4.42e-01 89.9% 75.7%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.64 42.0 4.69e-01 89.9% 91.5%
3508717 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.63 45.0 4.73e-01 98.7% 84.3%
3968122 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.63 37.0 4.36e-01 87.3% 100.0%
3868244 11.1.1.29 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TIG 0.62 43.0 4.13e-01 100.0% 62.1%
3400462 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.60 36.0 4.02e-01 92.4% 79.3%
4321866 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 38.0 3.48e-01 100.0% 48.6%
4969863 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 40.0 4.12e-01 89.9% 73.3%
3285401 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.58 46.0 4.71e-01 100.0% 92.0%
3937161 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 51.0 4.90e-01 98.7% 93.3%
5028185 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 42.0 4.19e-01 100.0% 76.2%
3649276 887.1.1.0 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e 0.57 35.0 3.07e-01 94.9% 39.2%
1063821 3707.1.1.1 ↗ a+b two layers › SdbC C-terminal domain › SdbC C-terminal domain › SdbC C-terminal domain › SdbC_C 0.56 35.0 3.85e-01 91.1% 80.6%
4162075 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.56 45.0 3.93e-01 100.0% 57.6%
3270141 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.55 37.0 3.40e-01 96.2% 51.4%
3737473 223.2.1.8 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Sybindin 0.55 40.0 3.24e-01 77.2% 43.2%
3382614 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.55 46.0 2.88e-01 100.0% 15.0%
3589291 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.55 40.0 3.71e-01 98.7% 60.0%
3368263 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.54 46.0 3.64e-01 100.0% 44.8%
3787176 4099.1.1.4 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O 0.54 39.0 3.39e-01 77.2% 70.0%
4946668 4020.1.1.1 ↗ a+b two layers › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › Aminotran_4 0.54 43.0 3.47e-01 88.6% 91.9%
3241831 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 3.87e-01 100.0% 64.5%
3592277 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.53 43.0 3.33e-01 89.9% 68.6%
3577596 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.53 40.0 3.39e-01 84.8% 98.6%
4983992 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.53 36.0 2.91e-01 70.9% 42.6%
3782747 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.52 33.0 3.31e-01 74.7% 63.7%
4360820 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 44.0 3.95e-01 100.0% 68.2%
3196591 11.1.1.871 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26282 0.52 42.0 3.39e-01 92.4% 82.9%
3388200 230.1.1.4 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › FolB 0.51 43.0 3.98e-01 100.0% 71.4%
3503237 11.1.1.961 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF28985 0.51 43.0 3.46e-01 97.5% 55.2%
4330210 327.6.1.6 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › Secretin 0.50 41.0 2.88e-01 91.1% 76.7%
D2 medium residues 47-127
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2uv8A07 6.10.140.1410 Special › Helix non-globular › Helix Hairpins › 0.68 48.0 4.78e-01 74.1% 72.9%
2vkzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.68 48.0 3.34e-01 74.1% 23.7%
4i0xG00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.66 47.0 5.13e-01 100.0% 88.2%
5dckA00 1.10.1200.30 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Retrovirus capsid C-terminal domain 0.66 40.0 4.25e-01 100.0% 69.0%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.66 46.0 4.51e-01 98.8% 67.4%
5ojcA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.66 48.0 3.89e-01 98.8% 40.9%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.65 44.0 4.18e-01 100.0% 59.6%
1urvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.64 47.0 3.79e-01 98.8% 40.9%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.63 45.0 4.62e-01 100.0% 77.9%
3cx5A02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.62 44.0 3.21e-01 75.3% 65.5%
2looA02 1.10.10.1740 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Transmembrane protein 14-like 0.61 44.0 4.59e-01 100.0% 84.0%
6fhpD00 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.61 42.0 4.61e-01 100.0% 93.5%
3aqbB00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.60 53.0 3.57e-01 100.0% 52.6%
2oyyA00 6.10.80.10 Special › Helix non-globular › DNA polymerase; domain 1 › Hexameric tyrosine-coordinated heme protein (HTHP) 0.60 47.0 5.01e-01 93.8% 98.6%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.59 46.0 4.47e-01 100.0% 73.9%
3ay5A01 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.59 49.0 4.14e-01 100.0% 54.9%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.59 43.0 4.52e-01 100.0% 87.8%
2gtvX00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.57 45.0 4.16e-01 100.0% 65.4%
6vvoC03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.56 34.0 3.34e-01 92.6% 54.9%
6cgvM01 1.20.120.1500 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pre-hexon-linking protein IIIa 0.55 41.0 3.45e-01 77.8% 63.4%
3mzvA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 46.0 3.21e-01 100.0% 58.6%
3f7cA00 1.20.1590.10 Mainly Alpha › Up-down Bundle › YP_001051499.1 fold like › YP_001051499.1 domain like 0.54 44.0 3.50e-01 97.5% 73.4%
2dlaA01 1.20.930.50 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.53 48.0 3.83e-01 98.8% 79.4%
2vs0A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.52 43.0 4.36e-01 98.8% 90.2%
5nl6B01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 45.0 3.96e-01 100.0% 65.3%
1v4eA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.51 44.0 3.11e-01 100.0% 48.9%
1i6zA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.50 45.0 3.83e-01 100.0% 64.4%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 46.0 4.09e-01 100.0% 79.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3642946 142.1.1.0 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.68 43.0 4.37e-01 74.1% 65.0%
4027155 621.1.1.0 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.66 49.0 5.08e-01 100.0% 86.7%
3655480 109.4.1.1258 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2 0.65 40.0 2.95e-01 93.8% 23.8%
5010469 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.62 50.0 4.55e-01 85.2% 94.3%
3297600 621.1.1.7 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › EMC6 0.62 49.0 4.64e-01 100.0% 71.0%
3686641 551.1.1.0 ↗ alpha arrays › Hsp90 co-chaperone CDC37 middle domain › Hsp90 co-chaperone CDC37 middle domain › Hsp90 co-chaperone CDC37 middle domain 0.61 50.0 4.55e-01 90.1% 99.1%
4977543 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.60 48.0 4.38e-01 100.0% 63.6%
3339796 650.1.1.1 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ 0.60 46.0 4.75e-01 100.0% 86.7%
4028974 5042.1.1.1 ↗ extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA 0.60 43.0 4.76e-01 76.5% 96.9%
3476112 109.23.1.5 ↗ alpha superhelices › Repetitive alpha hairpins › C-terminal domain in vacuolar protein sorting-associated protein 54 › C-terminal domain in vacuolar protein sorting-associated protein 54 › EMC6 0.57 45.0 4.40e-01 100.0% 77.8%
3988700 5082.1.1.1 ↗ alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.55 45.0 3.47e-01 92.6% 39.5%
3952930 604.6.1.28 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › PF30641 0.52 43.0 4.00e-01 100.0% 73.0%
3659143 564.1.1.0 ↗ alpha arrays › N-terminal, cytoplasmic domain of anti-sigma factors › N-terminal, cytoplasmic domain of anti-sigma factors › N-terminal, cytoplasmic domain of anti-sigma factors 0.51 40.0 3.77e-01 84.0% 73.0%