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DNA_polymerase
Euk-VirHuman_mastadenovirus_C
DNA_polymerase__NP_040516__Human_mastadenovirus_C__129951
Identity
- Accession:
- NP_040516 ↗
- Protein ID:
- DNA_polymerase
- Kingdom:
- euk
Quality
71.9
mean pLDDT
Taxonomy
Bamfordvirae›
Preplasmiviricota›
Pharingeaviricetes›
Rowavirales›
Adenoviridae›
Mastadenovirus›
Human_mastadenovirus_C
TaxID: 129951
Cluster
View cluster (24 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
medium
residues 691-702_806-850_971-995
Domain cluster:
rep: pol__YP_009362839__Bat_mastadenovirus_WIV17__1986505__D532-560_697-740_857-890
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03175.19 best | DNA_pol_B_2 | 66.0 | 4.40e-18 | 76.8% | 10.7% |
CATH (24)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2oo2A00 | 1.20.1270.90 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like | 0.70 | 49.0 | 5.09e-01 | 81.7% | 78.9% |
| 3craB01 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.69 | 51.0 | 5.04e-01 | 78.0% | 77.9% |
| 2v6yA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.68 | 46.0 | 4.83e-01 | 76.8% | 77.3% |
| 3kflA03 | 1.10.730.10 | Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 | 0.67 | 53.0 | 4.14e-01 | 85.4% | 70.9% |
| 4u1cA01 | 4.10.860.10 | Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain | 0.67 | 41.0 | 5.06e-01 | 75.6% | 98.1% |
| 6he1B01 | 1.10.287.40 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain | 0.67 | 48.0 | 5.36e-01 | 75.6% | 98.4% |
| 2idgA00 | 1.10.3480.10 | Mainly Alpha › Orthogonal Bundle › TorD-like › TorD-like | 0.67 | 54.0 | 4.29e-01 | 86.6% | 94.3% |
| 4fymF00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.66 | 55.0 | 4.05e-01 | 89.0% | 60.8% |
| 2gscC00 | 1.20.1440.60 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence | 0.66 | 53.0 | 4.80e-01 | 86.6% | 68.2% |
| 1rqgA04 | 1.10.730.10 | Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 | 0.66 | 52.0 | 4.28e-01 | 86.6% | 77.5% |
| 3iqcA00 | 1.20.120.340 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS | 0.65 | 50.0 | 4.39e-01 | 80.5% | 66.4% |
| 2v0cA04 | 1.10.730.10 | Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 | 0.65 | 53.0 | 4.22e-01 | 87.8% | 57.2% |
| 1vmgA00 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.64 | 46.0 | 4.62e-01 | 81.7% | 75.6% |
| 3gonA02 | 3.30.70.890 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain | 0.63 | 49.0 | 4.13e-01 | 81.7% | 60.4% |
| 5tpmB00 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.63 | 52.0 | 4.24e-01 | 86.6% | 77.3% |
| 4p9fA02 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.63 | 50.0 | 4.12e-01 | 85.4% | 73.6% |
| 1yvwA00 | 1.10.287.1080 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like | 0.63 | 46.0 | 4.46e-01 | 80.5% | 68.5% |
| 1wkbA03 | 1.10.730.10 | Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 | 0.62 | 50.0 | 4.43e-01 | 87.8% | 82.6% |
| 1bgfA00 | 1.10.532.10 | Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain | 0.62 | 43.0 | 3.77e-01 | 84.1% | 48.4% |
| 8amzT01 | 1.25.40.990 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.60 | 46.0 | 3.16e-01 | 80.5% | 33.7% |
| 1ku9A02 | 1.10.287.450 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.59 | 40.0 | 4.37e-01 | 70.7% | 93.8% |
| 2hs5A02 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.58 | 49.0 | 4.03e-01 | 89.0% | 76.4% |
| 5jc3A02 | 1.20.1320.30 | Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › | 0.57 | 45.0 | 3.95e-01 | 86.6% | 80.2% |
| 5jajA03 | 1.20.1320.30 | Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › | 0.53 | 40.0 | 3.65e-01 | 82.9% | 75.9% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3889863 | 277.1.1.1 ↗ | a+b two layers › PX domain › PX domain › PX domain › PX | 0.76 | 59.0 | 5.13e-01 | 86.6% | 55.8% |
| 4400977 | 604.34.1.0 ↗ | alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase | 0.75 | 49.0 | 4.89e-01 | 84.1% | 64.7% |
| 5022363 | 632.11.1.1 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DUF357 | 0.70 | 52.0 | 5.16e-01 | 79.3% | 75.3% |
| 4012819 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.69 | 49.0 | 3.55e-01 | 74.4% | 28.9% |
| 3943776 | 159.1.1.1 ↗ | alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG | 0.69 | 54.0 | 4.63e-01 | 84.1% | 58.5% |
| 3934932 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.66 | 53.0 | 4.44e-01 | 87.8% | 82.1% |
| 4056285 | 604.9.1.1 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p | 0.65 | 46.0 | 4.43e-01 | 75.6% | 64.2% |
| 3972329 | 633.5.1.0 ↗ | alpha bundles › Bromodomain-like › LemA-like › LemA-like | 0.64 | 52.0 | 4.16e-01 | 89.0% | 49.1% |
| 4958325 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.64 | 49.0 | 3.82e-01 | 80.5% | 76.4% |
| 3576407 | 622.4.1.0 ↗ | alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related | 0.63 | 44.0 | 3.97e-01 | 73.2% | 83.5% |
| 3319315 | 3684.1.1.0 ↗ | alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like | 0.60 | 45.0 | 3.13e-01 | 78.0% | 64.7% |
| 3169239 | 4323.1.1.2 ↗ | alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V-ATPase_C | 0.58 | 43.0 | 3.54e-01 | 80.5% | 79.4% |
| 3307687 | 3226.1.1.1 ↗ | alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › Xan_ur_permease | 0.52 | 44.0 | 2.92e-01 | 97.6% | 49.4% |
D2
medium
residues 703-805
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03175.19 best | DNA_pol_B_2 | 87.4 | 1.50e-24 | 100.0% | 19.0% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1nxiA00 | 3.30.70.970 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RraB-like | 0.52 | 38.0 | 3.52e-01 | 75.7% | 90.2% |
| 7lyuA01 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.50 | 41.0 | 3.45e-01 | 91.3% | 83.2% |
| 4p02B03 | 2.60.120.260 | Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like | 0.50 | 43.0 | 3.94e-01 | 97.1% | 95.8% |
ECOD (9)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4060282 | 4968.1.1.1 ↗ | a+b complex topology › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › DNA_pol_B_2 | 0.79 | 58.0 | 6.50e-01 | 100.0% | 98.8% |
| 4060951 | 4968.1.1.1 ↗ | a+b complex topology › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › DNA_pol_B_2 | 0.78 | 58.0 | 6.33e-01 | 100.0% | 94.1% |
| 4264107 | 304.48.1.17 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B_2 | 0.75 | 56.0 | 3.94e-01 | 100.0% | 26.7% |
| 3680878 | 304.48.1.17 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B_2 | 0.74 | 57.0 | 3.96e-01 | 100.0% | 25.9% |
| 4365778 | 304.48.1.17 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B_2 | 0.74 | 57.0 | 4.09e-01 | 100.0% | 29.6% |
| 3663219 | 4968.1.1.1 ↗ | a+b complex topology › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › DNA_pol_B_2 | 0.74 | 57.0 | 5.68e-01 | 100.0% | 79.0% |
| 4182877 | 4968.1.1.1 ↗ | a+b complex topology › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › DNA_pol_B_2 | 0.72 | 54.0 | 5.50e-01 | 100.0% | 81.0% |
| 3589964 | 12.1.1.24 ↗ | beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Malt_amylase_C | 0.55 | 32.0 | 3.61e-01 | 93.2% | 76.0% |
| 1887974 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.53 | 40.0 | 3.90e-01 | 83.5% | 94.0% |
D3
medium
residues 851-885_953-970
Domain cluster:
rep: DNA_polymerase__YP_009246419__Bat_mastadenovirus_WIV11__1788433__D804-841_908-928