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SRR1747065_scaffold_28_prodigal-single.1__X__X__00014

Bact-Vir

SRR1747065_scaffold_28_prodigal-single.1__X__X__00014

Identity

Kingdom:
phage

Quality

81.2 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 2-72
PDB
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6b9tF02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.73 52.0 4.49e-01 85.9% 48.6%
4fsdA02 3.40.5.100 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.71 50.0 4.70e-01 85.9% 60.5%
3anwA02 3.40.5.50 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.71 48.0 5.19e-01 84.5% 86.2%
2q30A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.68 49.0 4.58e-01 90.1% 61.4%
1pmiA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.65 47.0 3.48e-01 93.0% 29.2%
2oyzA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.65 45.0 4.13e-01 84.5% 55.3%
2fqpA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.65 48.0 4.35e-01 85.9% 58.9%
1pmiA03 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.64 51.0 4.25e-01 90.1% 50.4%
2e9xD02 3.40.5.60 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.62 43.0 4.62e-01 81.7% 86.7%
3g7mA00 2.60.110.10 Mainly Beta › Sandwich › Thaumatin › Thaumatin 0.61 53.0 4.17e-01 97.2% 80.1%
1jb0D00 3.30.1470.10 Alpha Beta › 2-Layer Sandwich › Photosystem 1 Reaction Centre Subunit Ii; Chain: D; › Photosystem I PsaD, reaction center subunit II 0.61 50.0 4.15e-01 95.8% 55.8%
2opkB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 44.0 4.06e-01 85.9% 59.6%
1goiA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.59 46.0 4.25e-01 84.5% 97.8%
5by5A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 44.0 3.84e-01 94.4% 51.3%
3h41A02 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 44.0 4.54e-01 84.5% 92.6%
3on7B00 2.60.120.330 Mainly Beta › Sandwich › Jelly Rolls › B-lactam Antibiotic, Isopenicillin N Synthase; Chain 0.57 45.0 2.98e-01 85.9% 26.3%
2bjoA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.56 38.0 3.52e-01 70.4% 94.7%
4mt1A07 3.30.70.1440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.55 43.0 3.95e-01 90.1% 92.2%
4uy8X00 2.30.170.40 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L28/L24 0.55 28.0 2.74e-01 76.1% 39.0%
2zuoA09 2.30.30.570 Mainly Beta › Roll › SH3 type barrels. › 0.54 39.0 4.08e-01 77.5% 93.7%
3pvlA05 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.53 41.0 4.07e-01 85.9% 82.9%
3nroA00 3.40.630.190 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein 0.52 45.0 3.21e-01 100.0% 40.4%
2fpeA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 38.0 4.01e-01 83.1% 93.5%
4obmA00 3.40.630.190 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein 0.50 43.0 3.02e-01 100.0% 45.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3929096 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 50.0 5.74e-01 81.7% 94.0%
4935547 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.73 47.0 5.45e-01 81.7% 94.0%
3716713 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.73 47.0 5.38e-01 81.7% 94.0%
4956746 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.72 49.0 5.63e-01 84.5% 100.0%
4133267 4076.3.1.3 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.72 48.0 5.29e-01 80.3% 87.3%
4932084 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.72 48.0 5.47e-01 84.5% 98.0%
3600426 4076.3.1.3 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.71 48.0 5.35e-01 81.7% 90.9%
4943471 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.71 49.0 5.37e-01 84.5% 92.7%
4567075 10.12.1.84 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › VKGC_lumenal_dom 0.70 51.0 3.36e-01 85.9% 19.3%
4991671 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 45.0 5.21e-01 80.3% 96.0%
5028408 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.69 47.0 5.31e-01 84.5% 100.0%
5035786 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.69 46.0 5.19e-01 83.1% 98.0%
4939413 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 46.0 5.24e-01 80.3% 98.0%
1346119 4076.4.1.1 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain › PriS_C 0.67 43.0 4.86e-01 84.5% 92.2%
4994655 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.66 43.0 4.89e-01 81.7% 96.0%
2668253 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.65 43.0 4.56e-01 76.1% 76.6%
3597906 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.63 51.0 3.54e-01 88.7% 32.7%
4236729 10.12.1.33 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Ectoine_synth 0.61 47.0 3.89e-01 95.8% 45.2%
4040812 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.59 44.0 4.14e-01 81.7% 95.5%
4025149 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.58 42.0 4.53e-01 81.7% 91.7%
3947154 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.58 44.0 4.10e-01 83.1% 95.6%
4379527 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.57 41.0 3.94e-01 78.9% 98.8%
4406214 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.56 42.0 3.94e-01 83.1% 93.5%
4032383 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 0.55 46.0 3.25e-01 95.8% 66.1%
4974067 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.55 40.0 3.19e-01 78.9% 45.2%
3635318 101.21.1.1 alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.55 38.0 3.15e-01 73.2% 98.5%
3785399 2.6.1.1 beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease › SNase 0.53 46.0 3.70e-01 100.0% 63.3%
3623796 4154.1.1.1 beta duplicates or obligate multimers › E2F-DP heterodimerization region › E2F-DP heterodimerization region › E2F-DP heterodimerization region › DP 0.53 37.0 3.00e-01 74.6% 82.0%
4449615 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.53 40.0 3.81e-01 84.5% 97.8%
3940677 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.53 43.0 3.25e-01 94.4% 51.3%
4969104 304.12.1.0 a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.52 40.0 3.84e-01 84.5% 94.1%
4344723 109.4.1.923 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › AEP1 0.51 42.0 2.71e-01 97.2% 81.2%
3274560 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.51 40.0 3.31e-01 87.3% 45.9%
D2 high residues 78-148
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vdyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.73 62.0 4.93e-01 93.0% 64.3%
6v88A00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.72 52.0 4.44e-01 77.5% 55.2%
1k8kG00 1.25.40.190 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Actin-related protein 2/3 complex subunit 5 0.71 56.0 4.49e-01 85.9% 77.7%
2ii2A01 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.66 49.0 4.97e-01 78.9% 94.2%
1z3xA01 1.25.40.620 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.66 50.0 3.94e-01 84.5% 53.1%
4jz6A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.65 52.0 3.56e-01 88.7% 81.4%
1xd4A04 1.10.840.10 Mainly Alpha › Orthogonal Bundle › Son of Sevenless (SoS) protein; Chain S, domain 2 › Ras guanine-nucleotide exchange factors catalytic domain 0.64 54.0 3.86e-01 94.4% 65.1%
3vwaA03 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.62 50.0 3.41e-01 93.0% 31.2%
1ciiA03 1.10.490.30 Mainly Alpha › Orthogonal Bundle › Globin-like › Colicin 0.60 45.0 3.55e-01 81.7% 46.5%
3lpzA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.58 48.0 3.32e-01 100.0% 39.1%
4r2fA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.57 45.0 3.30e-01 87.3% 86.9%
4aciA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.64e-01 100.0% 68.2%
7wu8B01 1.20.1160.20 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › 0.55 39.0 3.85e-01 77.5% 70.9%
1n1cA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.55 37.0 3.65e-01 71.8% 85.4%
8e9gE01 1.10.10.1590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E 0.55 39.0 4.10e-01 77.5% 98.4%
3f2eA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 39.0 3.69e-01 83.1% 66.3%
4ex8A00 3.40.1790.10 Alpha Beta › 3-Layer(aba) Sandwich › Indigoidine synthase fold › Indigoidine synthase domain 0.52 43.0 2.95e-01 98.6% 67.8%
1ursA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 42.0 3.31e-01 100.0% 100.0%
3pqaB01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.51 39.0 2.75e-01 88.7% 73.2%
2wtbA01 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.51 42.0 2.92e-01 100.0% 70.0%
1x8zB00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.50 34.0 2.83e-01 71.8% 49.0%
2ghaB02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.50 41.0 3.21e-01 100.0% 97.4%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5059607 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.75 67.0 5.25e-01 100.0% 65.3%
4027568 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.72 59.0 3.58e-01 90.1% 18.1%
3644863 109.4.1.12 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Clathrin 0.72 58.0 3.31e-01 90.1% 9.2%
3343547 109.4.1.1279 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_long, TPR_24 0.70 62.0 4.15e-01 100.0% 38.6%
3352354 109.4.1.420 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.66 53.0 4.39e-01 90.1% 60.7%
3714754 109.4.1.240 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_long 0.66 52.0 3.86e-01 87.3% 39.5%
3717538 109.4.1.1201 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RESC6 0.66 57.0 4.15e-01 100.0% 88.6%
3198591 109.59.1.7 alpha superhelices › Repetitive alpha hairpins › Intraflagellar transport protein 80 (IFT80) C-terminal domain › Intraflagellar transport protein 80 (IFT80) C-terminal domain › PPR_2 0.66 52.0 4.69e-01 90.1% 72.4%
1644236 109.4.1.207 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.66 51.0 4.29e-01 85.9% 68.5%
4026878 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 58.0 4.14e-01 100.0% 77.2%
3733428 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.65 50.0 4.10e-01 85.9% 52.1%
3549654 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 55.0 3.03e-01 100.0% 9.6%
3373217 109.4.1.1275 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_3, PPR_long, TPR_24 0.63 50.0 3.05e-01 90.1% 15.4%
3461806 109.4.1.651 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm_2 0.60 52.0 3.47e-01 100.0% 63.6%
3414440 109.4.1.3514 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Arm, Proteasom_PSMB 0.60 52.0 3.26e-01 100.0% 48.3%
3164482 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.56 40.0 3.03e-01 78.9% 64.0%
3759862 605.1.1.118 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › KRAB 0.55 37.0 3.30e-01 74.6% 49.0%
3744084 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 0.54 38.0 2.82e-01 73.2% 31.4%
3579373 7579.1.1.59 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › LIDHydrolase 0.54 44.0 3.00e-01 98.6% 79.0%