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RNA_polymerase_subunit_5

Euk-Vir

Acanthamoeba_polyphaga_moumouvirus

RNA_polymerase_subunit_5__YP_007354237__Acanthamoeba_polyphaga_moumouvirus__1269028

Identity

Accession:
YP_007354237 ↗
Protein ID:
RNA_polymerase_subunit_5
Kingdom:
euk

Quality

76.3 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Imitervirales› Mimiviridae› Moumouvirus› Acanthamoeba_polyphaga_moumouvirus

TaxID: 1269028

Cluster

View cluster (33 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 15-134
PDB
Domain cluster: rep: DNA-directed_RNA_polymerase_subunit_RPB5__YP_009310368__Golden_Marseillevirus__1720526__D1-112
D2 high residues 145-207
PDB
Domain cluster: rep: DNA-directed_RNA_polymerase_II_subunit_RPB5__YP_008052525__Phaeocystis_globosa_virus__251749__D146-209
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01191.25 best RNA_pol_Rpb5_C 66.4 2.10e-18 100.0% 84.9%
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1dzfA02 3.90.940.20 Alpha Beta › Alpha-Beta Complex › Eukaryotic RPB6 RNA polymerase subunit › RPB5-like RNA polymerase subunit 0.87 83.0 7.79e-01 100.0% 86.3%
2gu1A01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.73 35.0 3.11e-01 100.0% 31.8%
4gw9A02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.72 39.0 3.43e-01 100.0% 35.9%
2ivwA01 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.65 35.0 3.22e-01 100.0% 40.0%
1y8tA03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.61 41.0 3.62e-01 100.0% 50.0%
2d42A02 3.10.450.380 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 35.0 3.50e-01 100.0% 55.4%
3t4nA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.60 34.0 2.97e-01 100.0% 36.5%
3ci0J02 2.10.70.20 Mainly Beta › Ribbon › Complement Module; domain 1 › gspk-gspi-gspj complex like domains 0.60 39.0 4.25e-01 100.0% 84.0%
4jglA00 2.40.128.530 Mainly Beta › Beta Barrel › Lipocalin › 0.57 36.0 2.67e-01 100.0% 26.3%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.57 34.0 3.01e-01 100.0% 41.6%
2y1sA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.57 30.0 2.58e-01 100.0% 28.7%
7r3eB02 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.54 38.0 2.89e-01 100.0% 28.8%
1wuoA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.54 43.0 3.04e-01 90.5% 68.0%
1lyvA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.54 42.0 2.83e-01 90.5% 75.3%
5jqkA03 3.90.230.10 Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily 0.53 42.0 2.79e-01 90.5% 74.1%
2hn1A01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.53 40.0 3.20e-01 85.7% 62.7%
6t5kC00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.52 42.0 2.97e-01 92.1% 73.7%
3w2zA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.52 37.0 2.74e-01 100.0% 27.0%
2k31A00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.52 37.0 2.90e-01 100.0% 32.9%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.51 45.0 3.20e-01 100.0% 92.8%
6lkzC01 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.51 39.0 2.55e-01 88.9% 32.2%
1ryp200 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.51 45.0 3.05e-01 100.0% 82.8%
3l9fA01 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 0.50 37.0 3.33e-01 79.4% 79.8%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3824571 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.94 89.0 8.28e-01 100.0% 84.0%
3607644 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.93 87.0 8.21e-01 100.0% 85.1%
3596039 840.1.1.0 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit 0.92 85.0 8.15e-01 98.4% 88.6%
4838977 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.91 85.0 7.95e-01 100.0% 82.9%
4600910 840.1.1.0 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit 0.90 84.0 8.07e-01 100.0% 90.0%
4253107 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.89 82.0 7.76e-01 100.0% 86.3%
4861748 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.88 81.0 7.79e-01 100.0% 88.7%
3033324 840.1.1.1 ↗ a+b two layers › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RPB5-like RNA polymerase subunit › RNA_pol_Rpb5_C 0.86 79.0 7.54e-01 100.0% 87.5%
3827202 5.1.11.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed › eIF2A 0.75 39.0 2.59e-01 100.0% 14.1%
4832853 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 37.0 3.46e-01 100.0% 42.7%
3597823 330.16.1.3 ↗ a+b two layers › dsRBD-like › ODA16 N-terminal domain › ODA16 N-terminal domain › CEP19 0.66 33.0 3.21e-01 100.0% 41.4%
3273301 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 34.0 3.06e-01 100.0% 36.5%
5027780 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.58 34.0 3.49e-01 100.0% 58.3%
4647691 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.58 38.0 2.56e-01 100.0% 17.6%
3662203 377.1.2.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › PARP-type zinc finger › zf-PARP 0.57 40.0 3.66e-01 100.0% 55.3%
3244285 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.57 44.0 4.15e-01 100.0% 70.7%
4021561 377.1.2.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › PARP-type zinc finger › zf-PARP 0.56 42.0 3.58e-01 100.0% 48.6%
4973372 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.56 49.0 3.96e-01 100.0% 67.2%
3351761 377.1.2.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › PARP-type zinc finger › zf-PARP 0.56 39.0 3.46e-01 100.0% 49.5%
5078728 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.56 50.0 3.94e-01 100.0% 64.6%
3996270 109.4.1.872 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › INTS1_INTS2-bd 0.55 38.0 2.13e-01 71.4% 10.8%
5026843 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.54 47.0 3.72e-01 100.0% 53.3%
4407965 2007.1.1.12 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › Shikimate_dh_N 0.52 43.0 3.75e-01 96.8% 99.0%
4947896 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.51 44.0 3.57e-01 100.0% 67.2%
3451388 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 39.0 2.48e-01 100.0% 18.2%
2979119 2.1.1.2 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_L2 0.50 42.0 3.28e-01 95.2% 61.8%
5077637 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.50 43.0 3.47e-01 100.0% 64.6%