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JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00463

Bact-Vir

JSantini_GMIN_scaffold_8_prodigal-single.1__X__X__00463

Identity

Kingdom:
phage

Quality

87.1 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 4-78
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3axjB01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.86 63.0 4.81e-01 76.0% 41.9%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 61.0 5.33e-01 76.0% 52.4%
2d2sA02 1.20.58.1220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Exo84p, C-terminal helical domain 0.80 53.0 4.74e-01 72.0% 50.5%
2i7uA00 6.10.250.1010 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.77 52.0 5.63e-01 72.0% 83.9%
2b5uA02 1.10.287.620 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix Hairpins 0.75 54.0 4.17e-01 76.0% 39.1%
2yf4F00 1.10.3420.10 Mainly Alpha › Orthogonal Bundle › putative ntp pyrophosphohydrolase like fold › putative ntp pyrophosphohydrolase like domain 0.74 51.0 4.13e-01 73.3% 37.8%
6n7pX01 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.74 52.0 3.46e-01 74.7% 18.7%
2i0mA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.73 50.0 4.42e-01 70.7% 50.0%
1qv9A02 6.10.140.120 Special › Helix non-globular › Helix Hairpins › 0.71 55.0 4.98e-01 96.0% 61.2%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.71 61.0 5.46e-01 94.7% 86.4%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.70 44.0 3.73e-01 100.0% 40.2%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 60.0 4.28e-01 96.0% 73.2%
2mtqA00 1.20.58.130 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 42.0 4.29e-01 94.7% 61.6%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.70 49.0 4.65e-01 73.3% 67.8%
4akvA02 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.69 56.0 4.23e-01 90.7% 76.8%
1dowA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.68 51.0 3.77e-01 92.0% 29.8%
4hr1A00 1.20.1270.410 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.68 56.0 4.85e-01 90.7% 61.0%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.68 55.0 4.73e-01 90.7% 56.4%
1fouA01 1.10.246.30 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.67 51.0 5.17e-01 100.0% 81.1%
3r2qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 49.0 4.33e-01 85.3% 52.2%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.67 46.0 4.89e-01 70.7% 87.5%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 46.0 4.69e-01 73.3% 78.1%
3ez0C00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.66 45.0 3.27e-01 70.7% 25.5%
3rv0C02 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.66 50.0 4.12e-01 89.3% 43.8%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.65 45.0 4.38e-01 73.3% 63.2%
2a2cA03 1.20.1440.340 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.65 57.0 4.65e-01 96.0% 90.6%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.65 54.0 4.75e-01 94.7% 87.7%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.65 55.0 4.84e-01 96.0% 83.0%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 44.0 4.48e-01 70.7% 77.5%
2itbB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.64 54.0 3.99e-01 94.7% 57.1%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.64 42.0 3.84e-01 100.0% 49.5%
3ns4A00 1.10.357.110 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Vacuolar protein sorting-associated protein 53, C-terminus 0.62 51.0 3.76e-01 92.0% 50.7%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 42.0 4.24e-01 72.0% 73.1%
4ciuA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.61 52.0 3.88e-01 94.7% 74.5%
2b5dX02 1.20.1430.10 Mainly Alpha › Up-down Bundle › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase, middle domain 0.60 44.0 3.86e-01 90.7% 50.9%
2ipcA04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.60 48.0 3.36e-01 86.7% 64.5%
3buxB01 1.20.930.20 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Adaptor protein Cbl, N-terminal domain 0.60 52.0 4.40e-01 98.7% 89.1%
3rrkA02 1.20.1460.20 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › 0.60 50.0 3.98e-01 93.3% 67.1%
2l6hA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.59 46.0 3.80e-01 90.7% 44.8%
7egfc01 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.58 48.0 4.63e-01 92.0% 79.1%
3mvpA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 49.0 3.93e-01 96.0% 47.0%
6b8hO01 1.10.520.20 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › N-terminal domain of the delta subunit of the F1F0-ATP synthase 0.57 34.0 3.17e-01 100.0% 45.5%
2b7mA00 1.20.1280.170 Mainly Alpha › Up-down Bundle › Monooxygenase › Exocyst complex component Exo70 0.57 50.0 3.04e-01 98.7% 27.7%
4wv4B00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.57 47.0 4.41e-01 92.0% 74.2%
3ermB00 1.10.10.710 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › PSPTO_1197 like 0.55 38.0 4.06e-01 100.0% 85.9%
2np3A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 42.0 3.45e-01 100.0% 44.4%
4ijjB00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.54 49.0 4.08e-01 100.0% 70.0%
1nktA04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.51 43.0 3.34e-01 96.0% 44.6%
7vkcA01 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.50 41.0 3.24e-01 92.0% 88.5%
2lpeA01 6.10.140.1120 Special › Helix non-globular › Helix Hairpins › 0.50 36.0 3.60e-01 77.3% 80.8%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3810801 632.22.1.139 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › KIF21A_4th 0.81 57.0 4.50e-01 73.3% 38.0%
4001318 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.80 54.0 5.42e-01 70.7% 69.3%
3944931 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.77 53.0 5.04e-01 72.0% 75.6%
5007869 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.77 53.0 4.73e-01 72.0% 53.0%
3337008 192.2.1.60 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › KIF21A_4th 0.77 54.0 4.39e-01 73.3% 40.7%
5068844 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.76 52.0 4.80e-01 70.7% 56.8%
3957878 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.75 49.0 3.95e-01 73.3% 35.7%
3998454 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.75 45.0 4.18e-01 74.7% 47.4%
3708236 633.6.1.6 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACAD9-ACADV_C 0.73 59.0 5.25e-01 89.3% 61.9%
3931714 3826.1.1.46 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › L27_1 0.73 61.0 5.85e-01 90.7% 89.4%
3702556 632.7.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.73 55.0 4.60e-01 85.3% 48.0%
3580312 7015.1.1.0 alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.72 51.0 4.77e-01 76.0% 64.2%
3582396 109.4.1.1302 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30363 0.71 48.0 3.56e-01 70.7% 28.0%
3814378 611.7.1.8 alpha bundles › N-cbl like › Mixed lineage kinase domain-like (MLKL) N-terminal domain › Mixed lineage kinase domain-like (MLKL) N-terminal domain › RPW8 0.71 59.0 5.11e-01 92.0% 93.0%
4983098 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.70 49.0 4.19e-01 73.3% 94.1%
3529043 3922.1.1.179 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 › bMERB_dom 0.69 63.0 4.71e-01 100.0% 69.4%
4663861 5069.1.3.78 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › MIS13 0.69 52.0 5.16e-01 100.0% 75.0%
3250875 5059.1.1.16 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › SLC35F 0.69 51.0 3.26e-01 100.0% 16.4%
3497911 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.69 54.0 4.49e-01 89.3% 48.1%
3261693 601.37.1.0 alpha bundles › Four-helical up-and-down bundle › Photosystem II lipoprotein Psb27 › Photosystem II lipoprotein Psb27 0.68 48.0 4.15e-01 74.7% 48.3%
3723261 5054.1.1.58 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › YVC1_C 0.68 56.0 3.48e-01 94.7% 17.1%
4129922 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.68 57.0 5.25e-01 94.7% 80.0%
4464634 632.19.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.68 51.0 4.81e-01 80.0% 68.9%
3992628 6026.1.1.22 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › PF29335 0.68 51.0 5.04e-01 85.3% 75.0%
3504889 604.22.1.1 alpha bundles › Spectrin repeat-like › tubulin binding cofactor C N-terminal domain › tubulin binding cofactor C N-terminal domain › TBCC_N 0.68 47.0 4.55e-01 73.3% 64.7%
148583 109.1.1.1 alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C 0.67 46.0 3.97e-01 72.0% 45.8%
3471617 5057.1.1.0 alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore 0.67 55.0 4.61e-01 96.0% 51.9%
3631469 601.14.1.0 alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin 0.66 51.0 3.85e-01 90.7% 34.4%
3690916 604.5.1.51 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PF27980 0.66 44.0 4.48e-01 70.7% 70.7%
3734712 604.3.1.11 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.66 58.0 3.90e-01 100.0% 33.2%
3882466 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.65 55.0 4.80e-01 94.7% 72.2%
3186209 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 41.0 3.36e-01 70.7% 33.1%
4672000 589.1.1.0 alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain 0.65 56.0 4.25e-01 94.7% 51.4%
3668496 632.1.1.17 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Sas10_Utp3 0.65 51.0 4.66e-01 90.7% 65.0%
3245015 3831.1.1.0 alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.65 43.0 4.23e-01 80.0% 63.7%
3485696 192.29.1.139 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › TRAM_LAG1_CLN8 0.64 54.0 4.49e-01 96.0% 53.1%
4666408 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.64 54.0 5.13e-01 94.7% 80.0%
3785572 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.64 45.0 4.15e-01 89.3% 56.0%
3626530 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 44.0 4.15e-01 73.3% 57.9%
3608693 632.1.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.63 49.0 4.44e-01 90.7% 61.0%
3824153 611.7.1.11 alpha bundles › N-cbl like › Mixed lineage kinase domain-like (MLKL) N-terminal domain › Mixed lineage kinase domain-like (MLKL) N-terminal domain › DUF7032 0.63 53.0 4.45e-01 93.3% 78.5%
5030543 159.1.3.0 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › putative NTP pyrophosphohydrolase Exig_1061 0.62 39.0 3.63e-01 72.0% 47.0%
3608485 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.62 49.0 4.28e-01 86.7% 76.5%
3721944 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.62 46.0 2.96e-01 94.7% 16.0%
3493444 109.4.1.209 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Katanin_con80 0.61 45.0 3.35e-01 81.3% 31.8%
4945473 2498.1.1.10 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.60 52.0 3.48e-01 100.0% 52.3%
3934625 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.60 48.0 4.14e-01 100.0% 53.6%
3167091 148.1.1.12 alpha arrays › Histone-like › Histone-related › Histone › Bromo_TP 0.59 50.0 4.71e-01 92.0% 76.7%
4935668 601.33.1.1 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.57 47.0 4.02e-01 94.7% 59.2%
3386456 3718.1.1.0 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT 0.57 43.0 4.27e-01 94.7% 76.2%
3800611 5054.1.1.0 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.56 44.0 2.97e-01 89.3% 19.4%
4946322 2004.5.1.0 a/b three-layered sandwiches › P-loop domains-like › Differentially expressed in normal cells and neoplasia (DENN) domain › Differentially expressed in normal cells and neoplasia (DENN) domain 0.56 47.0 3.65e-01 90.7% 72.8%
4076 191.1.1.19 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_16 0.54 42.0 3.77e-01 100.0% 59.6%
5079588 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.54 37.0 3.58e-01 76.0% 60.0%
4641864 223.1.1.83 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_13 0.53 42.0 3.00e-01 100.0% 27.9%
3594817 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 45.0 3.34e-01 100.0% 88.5%
3175565 633.24.1.0 alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain 0.50 40.0 3.68e-01 94.7% 65.7%