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PH2017_36_ELK_O_B_scaffold_2_prodigal-single.1__X__X__00387

Bact-Vir

PH2017_36_ELK_O_B_scaffold_2_prodigal-single.1__X__X__00387

Identity

Kingdom:
phage

Quality

77.7 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 14-51
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 66.0 4.75e-01 100.0% 31.2%
4s1hA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.82 55.0 3.21e-01 97.4% 9.1%
4g6tB00 6.10.20.120 Special › Helix non-globular › Arc Repressor Mutant, subunit A › 0.79 59.0 4.78e-01 81.6% 74.6%
5khaB01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.78 53.0 3.13e-01 89.5% 10.4%
5w0kA01 3.90.380.20 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Herpesvirus glycoprotein H, domain D-II 0.75 63.0 3.72e-01 100.0% 66.2%
4mbsA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.74 55.0 3.22e-01 84.2% 24.6%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.73 54.0 3.36e-01 89.5% 15.2%
4hv0C00 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.73 52.0 3.97e-01 76.3% 84.3%
2dy1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.71 53.0 3.17e-01 81.6% 31.6%
3pieC05 2.170.260.40 Mainly Beta › Beta Complex › paz domain › 0.71 53.0 3.47e-01 84.2% 37.1%
4gyiA01 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 0.70 49.0 3.70e-01 71.1% 31.2%
2xgvA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.68 59.0 3.99e-01 94.7% 45.1%
2xadA00 3.40.50.10320 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › LmbE-like 0.68 53.0 3.21e-01 86.8% 18.9%
4uwmA00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.68 55.0 3.15e-01 89.5% 62.2%
4mzuF02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.68 52.0 3.51e-01 86.8% 61.5%
5cygB00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.68 56.0 3.32e-01 92.1% 25.4%
2jl8102 3.30.160.850 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.67 46.0 4.44e-01 76.3% 60.0%
3x1lB02 3.30.1040.70 Alpha Beta › 2-Layer Sandwich › Carboxypeptidase Inhibitor; Chain A › 0.67 46.0 4.10e-01 76.3% 84.1%
7l9pK01 3.30.900.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle, Spindle Assembly Checkpoint Protein; Chain A › HORMA domain 0.67 55.0 3.87e-01 97.4% 29.4%
2ivdA02 3.90.660.20 Alpha Beta › Alpha-Beta Complex › Polyamine Oxidase; Chain A, domain 2 › Protoporphyrinogen oxidase, mitochondrial; domain 2 0.66 51.0 3.29e-01 86.8% 47.3%
2uvaG01 1.20.1050.120 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 57.0 3.85e-01 100.0% 48.5%
7febA03 3.40.50.12790 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › FHIPEP family, domain 4 0.64 51.0 3.78e-01 86.8% 39.1%
7oslA02 3.40.50.12790 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › FHIPEP family, domain 4 0.63 47.0 3.49e-01 81.6% 82.0%
1mhyD00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.63 56.0 3.10e-01 100.0% 22.5%
7d4rB01 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.63 51.0 3.27e-01 100.0% 42.9%
2f1rA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 40.0 2.74e-01 89.5% 15.5%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.63 48.0 4.44e-01 94.7% 65.5%
8dvhB01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.62 49.0 3.07e-01 94.7% 17.9%
5hn3A00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.62 54.0 3.14e-01 100.0% 19.9%
6c80A03 3.40.462.10 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain 0.60 52.0 3.22e-01 100.0% 42.9%
2kqrA01 3.30.1910.20 Alpha Beta › 2-Layer Sandwich › so0334 like fold › asparaginyl-tRNA synthetase, N-terminal domain 0.59 45.0 3.77e-01 89.5% 93.2%
2aw4Z00 4.10.830.30 Few Secondary Structures › Irregular › 30s Ribosomal Protein S14; Chain N › Ribosomal protein L31 0.59 41.0 3.54e-01 76.3% 41.4%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.58 50.0 3.21e-01 97.4% 56.8%
2nscA01 3.30.70.1050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain 0.58 53.0 4.08e-01 100.0% 59.0%
4p1mB01 3.30.160.880 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Cell division protein ZapA protomer, N-terminal domain 0.58 53.0 4.98e-01 100.0% 93.3%
1vpaA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.57 46.0 2.87e-01 92.1% 70.1%
2jugA01 1.10.10.1830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Non-ribosomal peptide synthase, adenylation domain 0.57 38.0 3.47e-01 71.1% 72.7%
5ucoA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.57 48.0 3.21e-01 97.4% 34.6%
1oi6A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 45.0 2.89e-01 92.1% 55.4%
2x48A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.56 43.0 3.82e-01 97.4% 59.3%
2y3mA02 3.30.1370.130 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.55 45.0 3.95e-01 89.5% 60.7%
2epcA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.55 39.0 4.06e-01 97.4% 90.9%
1pjqA02 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.54 43.0 4.39e-01 84.2% 100.0%
2e3tB03 3.30.43.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2 0.54 37.0 3.24e-01 73.7% 44.3%
3mpxA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 40.0 3.17e-01 86.8% 34.0%
4ijdA02 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.54 37.0 4.05e-01 81.6% 90.3%
6ln0A02 1.10.8.1190 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Papain-like viral protease, thumb domain 0.53 40.0 2.94e-01 78.9% 39.4%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 41.0 3.23e-01 94.7% 73.6%
5undA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.52 37.0 3.33e-01 89.5% 51.9%
2h84A02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 39.0 2.73e-01 94.7% 33.1%
7vjvA01 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.50 37.0 2.48e-01 86.8% 15.9%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3230011 6106.1.1.0 ↗ extended segments › Photosystem II protein Y, psbY › Photosystem II protein Y, psbY › Photosystem II protein Y, psbY 0.89 54.0 4.01e-01 100.0% 28.2%
3614175 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.87 54.0 3.71e-01 100.0% 21.8%
4961292 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.87 53.0 4.07e-01 89.5% 32.0%
3580124 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.87 61.0 5.46e-01 92.1% 56.0%
3604536 2003.1.1.65 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_7 0.87 51.0 3.29e-01 92.1% 15.3%
3236563 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.87 57.0 3.80e-01 94.7% 20.8%
4978597 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.80 58.0 3.63e-01 76.3% 57.8%
4936323 4029.1.1.0 ↗ a+b duplicates or obligate multimers › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like 0.75 43.0 4.49e-01 84.2% 57.1%
3750883 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.73 63.0 3.94e-01 94.7% 20.0%
3921728 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.72 56.0 3.91e-01 89.5% 27.8%
3598612 220.1.1.230 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PF26289 0.71 58.0 4.38e-01 89.5% 97.8%
3482807 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.71 62.0 4.48e-01 100.0% 35.2%
3944499 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.71 58.0 4.49e-01 92.1% 49.4%
4457710 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 57.0 4.06e-01 100.0% 29.2%
4927100 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.70 57.0 4.39e-01 92.1% 84.4%
4531585 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 0.69 61.0 3.65e-01 100.0% 32.4%
4293536 4232.1.1.0 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 0.69 47.0 4.42e-01 76.3% 56.0%
3739283 3322.1.1.1 ↗ alpha bundles › N-terminal domain in fatty acid synthase subunit beta › N-terminal domain in fatty acid synthase subunit beta › N-terminal domain in fatty acid synthase subunit beta › FAS_N 0.68 54.0 3.70e-01 86.8% 56.2%
4025031 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.68 56.0 3.54e-01 92.1% 21.1%
4934384 101.1.2.947 ↗ alpha arrays › HTH › HTH › winged helix domain › PF27234 0.68 53.0 4.02e-01 84.2% 81.2%
5010770 2002.3.1.3 ↗ a/b barrels › TIM beta/alpha-barrel › Glycoside hydrolase/deacetylase › Glycoside hydrolase/deacetylase › Glyco_hydro_57 0.68 57.0 3.21e-01 94.7% 87.5%
3991544 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.68 55.0 4.01e-01 89.5% 34.0%
4308725 304.48.1.4 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Guanylate_cyc 0.68 60.0 3.70e-01 100.0% 37.7%
3249581 7512.1.1.6 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.67 54.0 3.19e-01 86.8% 12.7%
4959095 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.67 44.0 4.38e-01 76.3% 62.5%
4197044 3433.1.2.0 ↗ a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Chromosome-encoded ParB dimerization domain 0.66 46.0 4.20e-01 73.7% 68.0%
4336179 3322.1.1.1 ↗ alpha bundles › N-terminal domain in fatty acid synthase subunit beta › N-terminal domain in fatty acid synthase subunit beta › N-terminal domain in fatty acid synthase subunit beta › FAS_N 0.66 57.0 3.96e-01 100.0% 47.7%
3581763 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 49.0 4.03e-01 84.2% 84.3%
3401010 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 46.0 3.25e-01 92.1% 26.1%
3920672 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.62 55.0 4.04e-01 94.7% 46.7%
5030555 3433.1.1.0 ↗ a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Plasmid-encoded ParB dimerization domain 0.61 41.0 4.11e-01 71.1% 80.0%
3684015 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.61 57.0 4.02e-01 100.0% 42.0%
3239600 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.61 48.0 4.00e-01 92.1% 72.9%
2991657 7602.1.1.1 ↗ a/b three-layered sandwiches › Lactate racemase C-terminal domain › Lactate racemase C-terminal domain › Lactate racemase C-terminal domain › LarA_C 0.60 42.0 4.49e-01 78.9% 96.6%
3799597 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.60 55.0 4.15e-01 100.0% 49.4%
4059011 2008.1.1.48 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_NgoBV 0.60 44.0 3.03e-01 92.1% 21.2%
4543273 304.36.1.1 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.60 47.0 3.95e-01 86.8% 52.3%
3278688 2003.1.1.65 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_7 0.59 51.0 3.28e-01 92.1% 96.1%
2526356 2008.1.1.48 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_NgoBV 0.59 50.0 3.11e-01 100.0% 26.3%
3959171 4029.1.1.0 ↗ a+b duplicates or obligate multimers › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like 0.59 51.0 5.02e-01 92.1% 95.0%
3907976 377.9.1.8 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › zf-FCS 0.55 39.0 3.76e-01 86.8% 64.4%
3348248 3012.1.1.14 ↗ a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › KH_2 0.55 39.0 3.26e-01 78.9% 45.7%
4931446 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.55 40.0 2.83e-01 81.6% 91.1%
5079277 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.53 35.0 3.31e-01 76.3% 48.3%
3630429 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 35.0 3.05e-01 86.8% 42.6%
3616718 207.1.1.85 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › F-box-like 0.51 40.0 2.31e-01 92.1% 8.4%