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DNA-dependent_RNA_polymerase_II_largest_subunit

Euk-Vir

Ranavirus_maximus

DNA-dependent_RNA_polymerase_II_largest_subunit__YP_009272718__Ranavirus_maximus__1887314

Identity

Accession:
YP_009272718 ↗
Protein ID:
DNA-dependent_RNA_polymerase_II_largest_subunit
Kingdom:
euk

Quality

78.8 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Iridoviridae› Ranavirus› Ranavirus_maximus

TaxID: 1887314

Cluster

View cluster (11 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 528-634
PDB
Domain cluster: rep: putative_DNA_directed_RNA_polymerase_largest_subunit__YP_009052394__Aureococcus_anophagefferens_virus__1474867__D487-612
D2 medium residues 15-81_192-218
PDB
Domain cluster: rep: pig_ID_3158_F95_scaffold_0_curated_closed_complete_prodigal-single.1__X__X__00084__D6-65_144-157
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04997.18 best RNA_pol_Rpb1_1 49.0 7.90e-13 72.3% 22.1%
D3 medium residues 219-296
PDB
Domain cluster: rep: MG592415.1__AUR83112.1__NVP1031O_130__00130__D240-321
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.93 54.0 6.29e-01 84.6% 79.3%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.91 58.0 6.50e-01 89.7% 82.3%
2pmsC00 6.10.140.920 Special › Helix non-globular › Helix Hairpins › 0.89 59.0 5.18e-01 93.6% 48.6%
3u0cA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.87 63.0 4.94e-01 100.0% 39.1%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.86 56.0 4.48e-01 94.9% 36.1%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.86 55.0 6.33e-01 89.7% 87.9%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.85 53.0 5.52e-01 88.5% 67.6%
2x9xA04 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 47.0 5.50e-01 91.0% 79.6%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.84 62.0 6.94e-01 98.7% 98.4%
4aifA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.83 52.0 4.13e-01 83.3% 34.0%
2y4tA02 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.83 48.0 5.76e-01 85.9% 86.5%
3axjB01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.83 55.0 4.28e-01 96.2% 34.2%
8b9zK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.82 52.0 4.91e-01 85.9% 54.9%
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 0.82 49.0 6.13e-01 75.6% 95.9%
1rq0A01 6.10.140.160 Special › Helix non-globular › Helix Hairpins › 0.82 55.0 5.39e-01 97.4% 65.1%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.82 56.0 4.00e-01 100.0% 25.6%
3rkvA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.81 51.0 4.03e-01 83.3% 33.3%
3k6tB00 1.20.5.4010 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.81 47.0 5.94e-01 80.8% 93.9%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.81 52.0 5.79e-01 94.9% 83.6%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.80 59.0 5.94e-01 97.4% 76.9%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.79 53.0 4.63e-01 100.0% 47.0%
2p4vA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.78 57.0 5.80e-01 87.2% 77.6%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 52.0 5.73e-01 85.9% 84.1%
2f2gA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.78 54.0 3.82e-01 89.7% 26.0%
2ficB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.78 56.0 4.14e-01 100.0% 29.9%
2pusA02 1.10.287.540 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 44.0 5.23e-01 87.2% 83.0%
2q12A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.78 58.0 4.04e-01 100.0% 25.6%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.77 58.0 4.51e-01 100.0% 40.1%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.77 58.0 5.82e-01 100.0% 78.5%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.77 54.0 4.97e-01 94.9% 57.6%
1k90B03 1.20.140.60 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.76 46.0 4.05e-01 82.1% 41.7%
2yevA02 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 51.0 5.31e-01 96.2% 74.3%
6yz2A01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.75 54.0 4.61e-01 96.2% 48.3%
1n1cA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.74 52.0 5.18e-01 93.6% 69.5%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.74 59.0 4.23e-01 98.7% 32.5%
3ce9A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.74 44.0 3.23e-01 79.5% 23.7%
3pt1A02 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.73 51.0 4.41e-01 73.1% 75.8%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.72 47.0 5.13e-01 92.3% 82.5%
2pvqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.72 48.0 4.34e-01 91.0% 50.9%
4dyqA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.69 41.0 3.80e-01 80.8% 44.7%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 44.0 4.98e-01 79.5% 86.4%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.69 49.0 5.12e-01 94.9% 81.7%
3rx6A00 1.20.58.1090 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer 0.67 63.0 4.61e-01 100.0% 48.7%
4nswB01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.67 58.0 3.98e-01 100.0% 28.9%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.67 43.0 4.75e-01 89.7% 86.7%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 46.0 4.05e-01 100.0% 48.7%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.65 45.0 4.89e-01 91.0% 86.2%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.65 54.0 5.24e-01 100.0% 81.8%
4gyvE00 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.60 47.0 3.46e-01 100.0% 31.6%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.57 50.0 5.00e-01 100.0% 95.0%
1ciiA03 1.10.490.30 Mainly Alpha › Orthogonal Bundle › Globin-like › Colicin 0.53 36.0 2.90e-01 70.5% 98.1%
ECOD (70)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.99 55.0 7.48e-01 78.2% 100.0%
4978165 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.95 68.0 4.84e-01 100.0% 29.0%
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 0.95 59.0 6.51e-01 88.5% 76.9%
3937759 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.94 53.0 5.68e-01 78.2% 64.3%
4977429 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.94 68.0 5.39e-01 100.0% 41.4%
3809145 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.94 68.0 4.36e-01 100.0% 19.7%
3642421 603.1.1.5 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N 0.93 66.0 5.48e-01 100.0% 45.6%
3286637 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.93 67.0 5.06e-01 100.0% 35.2%
3348106 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.93 67.0 4.41e-01 100.0% 21.5%
4999337 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.93 67.0 5.13e-01 100.0% 37.4%
3967983 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 0.93 65.0 6.52e-01 97.4% 71.2%
4998819 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.93 67.0 5.45e-01 100.0% 44.6%
3200936 5001.1.1.85 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Fung_rhodopsin 0.93 66.0 4.52e-01 100.0% 24.2%
3676043 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.92 66.0 4.33e-01 100.0% 20.4%
4667859 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.92 66.0 5.69e-01 100.0% 50.4%
4972401 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.92 67.0 4.69e-01 100.0% 27.4%
3397137 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.92 53.0 5.46e-01 82.1% 61.3%
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 0.91 52.0 5.71e-01 78.2% 69.2%
3346803 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.91 66.0 4.22e-01 100.0% 19.0%
4961346 3805.1.1.1 ↗ alpha bundles › Hypothetical protein TTHB059 › Hypothetical protein TTHB059 › Hypothetical protein TTHB059 › DUF3209 0.90 65.0 5.49e-01 100.0% 48.3%
4214499 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 0.90 60.0 6.33e-01 96.2% 75.7%
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 52.0 6.47e-01 80.8% 92.0%
2464385 192.27.1.0 ↗ alpha bundles › Long alpha-hairpin › Helical hairpin in putative tRNA methyltransferase › Helical hairpin in putative tRNA methyltransferase 0.89 50.0 5.56e-01 76.9% 69.8%
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 0.89 51.0 6.27e-01 78.2% 90.0%
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 0.89 58.0 5.76e-01 93.6% 65.0%
4977784 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.88 63.0 4.36e-01 100.0% 24.7%
4311810 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 0.88 59.0 6.10e-01 98.7% 72.0%
3957419 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 0.88 61.0 6.30e-01 97.4% 74.7%
3995124 632.8.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 0.88 64.0 5.36e-01 100.0% 47.2%
3615269 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.88 64.0 4.55e-01 100.0% 28.1%
3622515 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.88 63.0 6.13e-01 100.0% 68.2%
3594586 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.87 64.0 5.91e-01 100.0% 62.1%
3678444 5076.2.1.10 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.87 63.0 4.10e-01 100.0% 20.0%
4815139 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 0.87 75.0 6.45e-01 91.0% 65.2%
4933354 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.87 62.0 4.26e-01 100.0% 24.2%
4108773 142.1.1.1 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r1_2,Sigma70_r2 0.87 55.0 3.49e-01 91.0% 15.4%
5032045 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.86 62.0 5.63e-01 100.0% 58.0%
3215465 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 0.86 63.0 5.17e-01 100.0% 45.4%
3471215 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 0.85 56.0 5.70e-01 92.3% 69.3%
3595683 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 0.85 59.0 4.40e-01 100.0% 30.8%
4146694 192.29.1.277 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Dynamitin 0.81 56.0 6.12e-01 98.7% 84.6%
3717545 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 0.81 74.0 4.72e-01 97.4% 22.7%
4996586 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.81 59.0 4.76e-01 100.0% 42.1%
3596876 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 0.81 73.0 4.67e-01 97.4% 22.4%
5017725 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.80 58.0 4.28e-01 100.0% 30.8%
4581983 5086.1.1.13 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › T3SSipB 0.79 56.0 4.55e-01 98.7% 41.4%
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 0.78 59.0 4.01e-01 96.2% 24.9%
3955489 2484.1.1.211 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605, Cas12f1-like_TNB 0.77 56.0 4.07e-01 100.0% 28.6%
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 0.76 54.0 4.78e-01 94.9% 52.3%
5050698 10.28.1.1 ↗ beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1 › jr-ZPR1 0.75 58.0 4.76e-01 80.8% 48.1%
4998688 192.2.1.89 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › DUF7121 0.74 47.0 3.32e-01 100.0% 20.8%
3451778 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.74 49.0 4.08e-01 97.4% 40.0%
3172138 3846.1.1.0 ↗ alpha bundles › IcmR › IcmR › IcmR 0.73 47.0 5.20e-01 91.0% 80.0%
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 0.73 57.0 3.98e-01 96.2% 27.7%
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 0.71 52.0 4.42e-01 94.9% 49.2%
3232471 3652.1.1.2 ↗ alpha duplicates or obligate multimers › Qua1 › Qua1 › Qua1 › STAR_dimer 0.70 42.0 4.59e-01 84.6% 75.0%
3757999 219.1.1.9 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C12 0.70 49.0 3.32e-01 98.7% 19.3%
5070059 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.68 65.0 4.35e-01 100.0% 49.2%
4994917 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.68 64.0 4.35e-01 100.0% 71.8%
3681643 109.4.1.146 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cohesin_load 0.68 52.0 3.23e-01 96.2% 16.5%
5070360 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.67 63.0 4.87e-01 100.0% 66.5%
5044205 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.66 62.0 4.04e-01 100.0% 31.5%
4590389 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.65 60.0 4.73e-01 100.0% 74.2%
4541195 3755.3.1.470 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › T3SSipB 0.65 56.0 4.65e-01 100.0% 55.4%
3755476 3755.1.1.0 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.65 60.0 4.51e-01 100.0% 56.6%
3416038 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.65 60.0 4.94e-01 98.7% 83.1%
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 0.64 61.0 3.50e-01 100.0% 20.3%
2029634 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 0.62 52.0 4.53e-01 89.7% 87.0%
5052188 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 52.0 3.24e-01 100.0% 25.7%
4301314 160.1.1.1 ↗ alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › ATP-synt_ab_C 0.53 36.0 3.81e-01 87.2% 80.9%
D4 medium residues 297-327_429-527
PDB
Domain cluster: rep: DNA-dependent_RNA_polymerase_subunit_rpo147__YP_232980__Vaccinia_virus__10245__D277-311_370-443
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00623.26 best RNA_pol_Rpb1_2 99.6 3.30e-28 57.7% 42.8%
D5 medium residues 642-789
PDB
Domain cluster: rep: IMGVR_UViG_3300026526_001751-3300026526-Ga0256869_10341511__D627-809
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05000.23 best RNA_pol_Rpb1_4 47.8 1.70e-12 82.4% 70.1%
D6 medium residues 831-935
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4h79A00 1.10.520.40 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › CRISPR-associated protein Cse2 0.58 43.0 3.63e-01 78.1% 46.3%
3k3uA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 40.0 3.71e-01 80.0% 100.0%
7wboA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.52 37.0 3.10e-01 73.3% 60.6%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3784119 4958.1.1.1 ↗ a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 0.57 49.0 3.56e-01 100.0% 42.3%
51182 106.1.1.0 ↗ alpha arrays › Globin-like › Globin-like › Globin-like 0.54 40.0 3.75e-01 80.0% 100.0%
3293 106.1.1.1 ↗ alpha arrays › Globin-like › Globin-like › Globin-like › Globin 0.54 40.0 3.73e-01 80.0% 100.0%
D7 medium residues 989-1130
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2phcB01 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.70 41.0 5.25e-01 70.4% 100.0%
1xppD00 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.62 39.0 4.50e-01 77.5% 88.1%
1rkiA01 3.30.70.1650 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › PDO, CxxC motif 0.62 26.0 3.11e-01 100.0% 52.6%
6torA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.61 40.0 4.04e-01 74.6% 64.6%
3qx3B03 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.61 38.0 4.41e-01 76.1% 88.0%
8gccA02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.61 37.0 4.50e-01 75.4% 98.8%
2dr1A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.59 37.0 3.83e-01 73.9% 64.4%
3rqtA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 51.0 4.20e-01 97.9% 71.4%
1i7qA00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.53 46.0 3.13e-01 94.4% 48.0%
1mg7A01 3.30.70.1000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Switch protein XOL-1, GHMP-like 0.51 38.0 3.59e-01 78.9% 100.0%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5060359 4956.1.1.0 ↗ a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.83 35.0 5.11e-01 100.0% 84.3%
3597807 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.56 38.0 3.98e-01 70.4% 75.4%
4956034 306.3.1.6 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › DEAD_assoc 0.53 38.0 3.51e-01 72.5% 80.6%
4931792 306.3.1.6 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › DEAD_assoc 0.52 38.0 3.40e-01 73.9% 87.2%
4952870 309.1.1.15 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › DEAD_assoc 0.50 36.0 3.37e-01 73.2% 81.1%