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LSDeep1_scaffold_42_prodigal-single.1__X__X__00200

Bact-Vir

LSDeep1_scaffold_42_prodigal-single.1__X__X__00200

Identity

Kingdom:
phage

Quality

92.9 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 3-50
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.87 67.0 5.59e-01 81.2% 53.9%
4gouA03 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.86 69.0 4.40e-01 85.4% 20.8%
2wmmA01 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 0.86 69.0 6.93e-01 85.4% 89.8%
3mpxA01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.86 79.0 5.03e-01 100.0% 26.7%
3fnbA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.85 69.0 5.08e-01 87.5% 39.5%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.84 64.0 3.66e-01 81.2% 10.6%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.84 68.0 5.41e-01 87.5% 62.6%
4a4kA01 1.20.1500.20 Mainly Alpha › Up-down Bundle › YheA-like fold › 0.83 71.0 5.23e-01 91.7% 46.9%
4aifA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.83 68.0 4.74e-01 89.6% 34.0%
2zt5A02 3.30.40.230 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.83 57.0 4.67e-01 77.1% 41.7%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.82 65.0 5.91e-01 85.4% 66.7%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 64.0 5.81e-01 83.3% 68.3%
3pt1A02 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.82 64.0 4.71e-01 85.4% 34.2%
2k19A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.81 59.0 4.59e-01 77.1% 40.8%
3n71A03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.79 64.0 4.06e-01 87.5% 20.2%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 61.0 5.13e-01 85.4% 74.7%
5nohA00 1.20.120.1350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain 0.77 58.0 4.52e-01 81.2% 37.9%
4dkcB00 1.20.1250.80 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interleukin-34 0.77 70.0 4.75e-01 100.0% 35.6%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.71 60.0 5.02e-01 97.9% 69.0%
3ce9A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.71 61.0 4.08e-01 100.0% 44.3%
1fafA00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.71 54.0 4.66e-01 85.4% 58.2%
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 0.70 60.0 5.14e-01 100.0% 60.8%
3pjaJ01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.70 61.0 4.46e-01 100.0% 50.4%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 57.0 5.11e-01 97.9% 74.0%
1aluA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.66 56.0 4.00e-01 100.0% 35.0%
3e3vA03 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 0.62 42.0 4.01e-01 70.8% 85.7%
1kxpD02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.62 45.0 3.80e-01 81.2% 46.6%
1n00A03 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.61 48.0 4.31e-01 100.0% 61.6%
1vfiA00 1.10.246.100 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Vanadium-binding protein 2 0.60 48.0 3.92e-01 91.7% 94.7%
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.59 47.0 4.60e-01 89.6% 83.0%
3gziA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 45.0 3.15e-01 97.9% 52.7%
8g4uA02 3.30.70.3290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 40.0 3.44e-01 75.0% 72.6%
2g80A02 1.10.720.60 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.58 41.0 3.58e-01 77.1% 82.1%
1vibA00 1.10.287.120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Neurotoxin B-IV-like 0.56 44.0 4.30e-01 87.5% 81.8%
1x4pA00 1.10.10.790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module 0.56 43.0 3.96e-01 87.5% 74.2%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 46.0 3.30e-01 95.8% 48.7%
4hdrA01 1.10.1610.10 Mainly Alpha › Orthogonal Bundle › 5,6-Dimethylbenzimidazole Phosphoribosyltransferase; Chain: A; domain 1 › Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (CobT), small domain 0.55 38.0 3.46e-01 75.0% 54.7%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4410658 4246.1.1.2 a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 0.96 74.0 4.20e-01 81.2% 9.4%
3348106 5076.2.1.10 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.94 73.0 4.37e-01 81.2% 15.6%
4213046 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.94 72.0 6.42e-01 81.2% 63.1%
3397137 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.94 72.0 6.06e-01 81.2% 54.7%
4565383 192.6.1.0 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.93 72.0 7.09e-01 81.2% 82.0%
3192393 2004.1.1.430 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn 0.93 73.0 4.01e-01 83.3% 6.8%
5052188 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.93 73.0 4.15e-01 83.3% 10.0%
4667859 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.93 73.0 5.32e-01 83.3% 36.5%
3240265 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 0.92 71.0 4.19e-01 81.2% 13.0%
4774281 1147.1.1.1 alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL 0.92 73.0 5.38e-01 83.3% 42.2%
4513601 4246.1.1.0 a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit 0.92 73.0 4.04e-01 83.3% 7.5%
3755476 3755.1.1.0 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.91 71.0 4.67e-01 83.3% 24.0%
3651038 192.29.1.221 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › PF29520 0.91 69.0 4.90e-01 81.2% 32.3%
3796589 604.12.1.1 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.90 70.0 5.40e-01 83.3% 42.0%
4544002 192.6.1.1 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.90 69.0 6.82e-01 81.2% 82.0%
4202466 192.6.1.0 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.89 72.0 7.43e-01 85.4% 91.1%
3386700 304.58.1.0 a+b two layers › Alpha-beta plaits › FepE-like › FepE-like 0.89 69.0 4.14e-01 83.3% 16.3%
4170866 192.6.1.0 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.89 66.0 6.82e-01 81.2% 84.4%
3346803 5076.2.1.10 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.88 67.0 4.00e-01 81.2% 13.8%
4674738 133.1.1.0 alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) 0.88 71.0 4.42e-01 85.4% 18.6%
3495960 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.87 68.0 4.48e-01 83.3% 23.3%
5032045 4163.1.1.0 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.87 66.0 5.12e-01 81.2% 42.0%
3817615 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.86 76.0 5.77e-01 95.8% 73.3%
3720598 109.4.1.356 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.86 78.0 4.41e-01 97.9% 14.9%
5048239 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.86 66.0 4.90e-01 83.3% 35.7%
3681637 603.1.1.5 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N 0.86 76.0 5.07e-01 97.9% 46.9%
4883924 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.85 68.0 5.64e-01 85.4% 51.2%
4992036 7523.1.1.30 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › SBP_bac_11 0.85 78.0 4.88e-01 100.0% 54.3%
3983659 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.85 80.0 7.09e-01 100.0% 80.0%
3615269 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.85 68.0 4.33e-01 85.4% 19.5%
4935546 4163.1.1.0 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.84 67.0 4.71e-01 85.4% 30.4%
4590389 4163.1.1.1 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.84 64.0 4.41e-01 83.3% 27.1%
4539096 109.4.1.603 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TAF1_subA 0.83 74.0 4.26e-01 97.9% 14.9%
4977369 304.48.1.3 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.83 75.0 4.58e-01 95.8% 45.2%
3582116 1147.1.1.1 alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL 0.83 63.0 4.68e-01 83.3% 39.2%
4164825 4146.1.1.3 alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like › PKHD_C 0.83 60.0 6.19e-01 79.2% 93.3%
5075952 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.82 63.0 4.59e-01 83.3% 32.8%
4283760 1203.1.2.7 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR 0.82 73.0 5.18e-01 100.0% 49.3%
4541195 3755.3.1.470 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › T3SSipB 0.82 64.0 4.62e-01 85.4% 32.3%
3742447 604.9.1.0 alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 0.81 69.0 5.41e-01 97.9% 46.0%
4970593 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.81 75.0 4.54e-01 97.9% 45.2%
4959101 304.48.1.3 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.80 76.0 4.63e-01 100.0% 47.3%
3719591 4121.1.1.0 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.80 73.0 4.61e-01 100.0% 39.1%
4956224 304.48.1.3 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.79 72.0 4.49e-01 97.9% 48.1%
3637662 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.79 66.0 5.42e-01 91.7% 52.9%
4683248 5086.1.1.66 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › GNVR 0.79 73.0 5.10e-01 100.0% 48.6%
3733397 109.42.1.0 alpha superhelices › Repetitive alpha hairpins › E3 ubiquitin-protein ligase SHPRH first helical domain › E3 ubiquitin-protein ligase SHPRH first helical domain 0.79 73.0 4.71e-01 100.0% 26.3%
4982660 304.48.1.3 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.78 73.0 4.52e-01 97.9% 43.7%
4008609 1203.1.2.7 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR 0.75 68.0 4.78e-01 100.0% 50.7%
3595069 604.1.1.199 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF26165 0.75 67.0 5.88e-01 100.0% 75.7%
3503635 605.1.1.133 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › OST3_OST6 0.72 56.0 4.21e-01 87.5% 38.3%
3813695 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.72 59.0 3.76e-01 97.9% 19.6%
3823956 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.69 57.0 4.06e-01 100.0% 29.7%
3596822 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.69 58.0 4.56e-01 100.0% 53.6%
3925746 3065.1.1.2 alpha bundles › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Fatty acid- and retinoid-binding proteins › Gp-FAR-1 0.66 57.0 4.18e-01 100.0% 38.5%
3765815 515.1.1.1 alpha arrays › Transcription factor STAT-4 N-domain › Transcription factor STAT-4 N-domain › Transcription factor STAT-4 N-domain › STAT_int 0.61 45.0 3.46e-01 81.2% 32.5%
3757999 219.1.1.9 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C12 0.59 43.0 2.78e-01 87.5% 14.2%