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ALT_09252017_20_scaffold_111_prodigal-single.1__X__X__00120

Bact-Vir

ALT_09252017_20_scaffold_111_prodigal-single.1__X__X__00120

Identity

Kingdom:
phage

Quality

86.2 mean pLDDT

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 34-117
PDB
Domain cluster: representative
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nctA00 3.40.50.11880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Plasmid SOS inhibition protein 0.70 48.0 4.06e-01 71.4% 54.7%
6grrB01 3.30.457.10 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › Copper amine oxidase-like, N-terminal domain 0.66 48.0 4.94e-01 75.0% 81.0%
3cwxA00 3.40.1420.20 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Pathogenicity island component CagD 0.65 44.0 3.89e-01 70.2% 57.6%
6igbA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 44.0 2.86e-01 73.8% 86.0%
1tl2A00 2.115.10.10 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Tachylectin 2 0.61 43.0 3.17e-01 75.0% 88.9%
1pvdA02 3.40.50.1220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain 0.60 51.0 4.26e-01 96.4% 93.5%
3fgbA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 45.0 3.03e-01 81.0% 84.8%
4q1vA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.59 40.0 2.53e-01 70.2% 95.5%
2gnxA02 3.30.450.240 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.59 40.0 3.70e-01 70.2% 97.2%
3hrpA02 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.58 44.0 3.08e-01 83.3% 96.4%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.58 50.0 4.08e-01 98.8% 90.4%
2giaA00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.58 50.0 4.15e-01 97.6% 85.7%
2mhdA00 2.40.128.370 Mainly Beta › Beta Barrel › Lipocalin › 0.58 42.0 3.89e-01 77.4% 79.1%
1yn8A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 34.0 3.92e-01 91.7% 84.7%
1zh8A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.56 50.0 3.82e-01 96.4% 94.0%
1ybxA00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.55 37.0 3.62e-01 96.4% 63.7%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.54 46.0 3.86e-01 98.8% 65.4%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 47.0 3.42e-01 100.0% 36.5%
5h4eA02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.53 37.0 3.36e-01 73.8% 90.8%
2vrwB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 45.0 4.05e-01 97.6% 80.2%
2itmB02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 44.0 3.27e-01 95.2% 67.5%
6fucA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 36.0 3.66e-01 71.4% 87.2%
1yw5A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.51 31.0 3.50e-01 90.5% 81.0%
6fh1B01 3.30.590.10 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › Glutamine synthetase/guanido kinase, catalytic domain 0.51 37.0 2.66e-01 73.8% 94.4%
5dezA03 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 38.0 4.08e-01 78.6% 100.0%
2jo6A00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.51 36.0 3.39e-01 76.2% 67.3%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.51 42.0 3.80e-01 92.9% 93.3%
2r1bA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 42.0 3.21e-01 90.5% 76.3%
1y9lA00 2.40.128.230 Mainly Beta › Beta Barrel › Lipocalin › Pilot protein MxiM 0.51 39.0 3.60e-01 84.5% 91.8%
8f66A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.51 39.0 2.96e-01 83.3% 87.1%
3dodB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.50 45.0 3.57e-01 98.8% 82.1%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3534783 11.1.1.787 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ITI_HC_C 0.67 51.0 3.67e-01 81.0% 64.9%
135088 241.3.1.1 a+b two layers › Type III secretory system chaperone-like › N domain of copper amine oxidase › N domain of copper amine oxidase › Cu_amine_oxidN1 0.66 48.0 4.78e-01 75.0% 74.4%
3565627 11.1.1.787 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ITI_HC_C 0.65 48.0 3.66e-01 78.6% 68.7%
3692287 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.64 48.0 2.99e-01 79.8% 87.4%
4580534 241.3.1.1 a+b two layers › Type III secretory system chaperone-like › N domain of copper amine oxidase › N domain of copper amine oxidase › Cu_amine_oxidN1 0.64 47.0 4.32e-01 82.1% 59.1%
3585692 216.1.1.20 a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.64 44.0 3.58e-01 70.2% 53.3%
None 0.64 43.0 3.84e-01 70.2% 67.5%
3356611 64.1.1.0 beta meanders › WW domain-like › WW domain › WW domain 0.63 38.0 4.46e-01 83.3% 90.9%
2418904 5.1.4.35 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Lactonase 0.62 44.0 2.86e-01 73.8% 86.0%
3408563 5.1.4.661 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR36-Utp21_1st 0.61 46.0 3.20e-01 82.1% 96.3%
3471260 5.1.4.661 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR36-Utp21_1st 0.61 41.0 2.78e-01 70.2% 59.1%
4618205 604.1.1.150 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF28954 0.60 55.0 4.82e-01 98.8% 99.2%
4829352 5.1.2.3 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › DPPIV_N 0.60 45.0 2.81e-01 79.8% 66.5%
3715024 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.59 46.0 4.50e-01 83.3% 86.7%
3176989 601.19.1.40 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › PF28954 0.59 52.0 4.21e-01 98.8% 76.2%
4386701 310.2.1.35 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › PF28954 0.58 52.0 4.37e-01 100.0% 86.9%
5794 295.1.1.7 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › MRP 0.58 50.0 4.15e-01 97.6% 85.7%
3744814 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.58 40.0 3.94e-01 71.4% 84.4%
3360656 331.4.1.2 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.57 40.0 3.48e-01 72.6% 69.5%
5032320 242.1.1.2 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 0.57 48.0 4.81e-01 91.7% 100.0%
4955531 2002.1.1.30 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.57 39.0 2.67e-01 91.7% 19.4%
3272453 6.1.1.7 beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › CDtoxinA 0.57 30.0 2.62e-01 75.0% 30.4%
3550365 331.23.1.2 a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain › IntS9_C 0.56 40.0 4.13e-01 72.6% 93.6%
3503204 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.56 32.0 3.06e-01 100.0% 49.5%
3718216 4051.1.1.0 a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz 0.55 39.0 3.44e-01 73.8% 78.4%
None 0.55 48.0 3.21e-01 96.4% 58.4%
3223920 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 37.0 3.87e-01 70.2% 81.3%
3471720 604.5.1.0 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.54 48.0 3.71e-01 100.0% 43.7%
4945847 298.1.1.0 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.54 48.0 3.81e-01 96.4% 98.2%
5078256 298.1.1.24 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.54 47.0 3.63e-01 97.6% 93.8%
3627280 331.23.1.0 a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain 0.54 40.0 4.23e-01 77.4% 94.7%
279006 4.1.1.1 beta barrels › SH3 › SH3 › SH3 › SH3_1 0.54 34.0 3.70e-01 98.8% 78.3%
3628972 633.23.1.5 alpha bundles › Bromodomain-like › Claudin › Claudin › Clc-like 0.53 47.0 3.57e-01 100.0% 80.5%
3474880 331.23.1.0 a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain 0.53 37.0 3.64e-01 71.4% 97.8%
5081724 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.53 48.0 3.61e-01 100.0% 79.0%
3799048 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.53 47.0 3.57e-01 100.0% 84.5%
4262950 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 39.0 2.76e-01 81.0% 95.3%
3431347 5.1.3.118 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.52 40.0 2.92e-01 84.5% 89.8%
3682683 5.1.3.7 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › NHL 0.52 40.0 2.94e-01 85.7% 66.0%
3279701 319.1.1.16 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › PF26059 0.50 36.0 3.75e-01 82.1% 81.2%
4026983 604.1.1.135 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF155 0.50 43.0 3.13e-01 91.7% 58.2%
4958980 331.2.1.14 a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › Fer4_7 0.50 44.0 3.58e-01 94.0% 82.0%
4939609 2008.5.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › Uncharacterized protein AF_2093 C-terminal domain › Uncharacterized protein AF_2093 C-terminal domain › DUF6834_C 0.50 35.0 3.06e-01 73.8% 69.6%
D2 high residues 121-162
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.90 81.0 4.90e-01 100.0% 19.4%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.90 76.0 6.07e-01 95.2% 48.8%
5gmkZ01 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.82 63.0 3.94e-01 88.1% 15.9%
4c9bB00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.81 64.0 3.86e-01 95.2% 13.7%
3nkzA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.79 65.0 4.94e-01 100.0% 39.2%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.79 71.0 4.80e-01 100.0% 35.9%
3b9qA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.74 52.0 4.19e-01 81.0% 37.1%
4crwA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.73 56.0 3.56e-01 88.1% 16.8%
2cazC00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 59.0 5.33e-01 100.0% 84.4%
4o92A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.72 57.0 4.40e-01 92.9% 42.9%
1xd4A03 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.70 62.0 3.87e-01 100.0% 20.6%
4akrA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.70 47.0 3.59e-01 71.4% 28.3%
4hkaA02 1.10.287.3810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 52.0 5.08e-01 100.0% 76.5%
4djgB00 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 0.68 54.0 5.21e-01 88.1% 80.9%
1a0aA00 4.10.280.10 Few Secondary Structures › Irregular › MYOD Basic-Helix-Loop-Helix Domain, subunit B › Helix-loop-helix DNA-binding domain 0.68 54.0 4.80e-01 90.5% 82.5%
7b9cA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.67 57.0 3.31e-01 100.0% 11.4%
4dooA01 3.50.70.10 Alpha Beta › 3-Layer(bba) Sandwich › Chalcone isomerase › 0.66 44.0 3.05e-01 88.1% 19.5%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3589720 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.92 84.0 5.58e-01 100.0% 29.0%
4978586 604.9.1.0 alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 0.79 69.0 5.15e-01 100.0% 38.2%
3780458 223.2.1.51 a+b three layers › Profilin-like › profilin-like › profilin-like › Njmu-R1 0.70 50.0 3.55e-01 83.3% 23.1%
3490111 385.1.1.10 few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines › Noggin 0.70 58.0 3.86e-01 100.0% 23.2%
3959151 377.2.1.1 few secondary structure elements › Glucocorticoid receptor-like › C-terminal, Zn-finger domain of MutM-like DNA repair proteins › C-terminal, Zn-finger domain of MutM-like DNA repair proteins › zf-FPG_IleRS 0.69 48.0 4.19e-01 76.2% 47.1%