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DNA_polymerase_processing_factor
Euk-VirAkhmeta_virus
DNA_polymerase_processing_factor__YP_010085600__Akhmeta_virus__2200830
Identity
- Accession:
- YP_010085600 ↗
- Protein ID:
- DNA_polymerase_processing_factor
- Kingdom:
- euk
Quality
88.3
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Pokkesviricetes›
Chitovirales›
Poxviridae›
Orthopoxvirus›
Orthopoxvirus_akhmetapox
TaxID: 2200830
Cluster
View cluster (29 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
high
residues 57-210
Domain cluster:
rep: Salt_Pond_R1_B_H2O_MG_scaffold_1_prodigal-single.1__X__X__00295__D161-347
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05941.20 best | Chordopox_A20R | 175.7 | 1.90e-51 | 100.0% | 46.4% |
D2
high
residues 214-290
Domain cluster:
rep: DNA_polymerase_processivity_factor__YP_009480649__Sea_otter_poxvirus__1416741__D221-304
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05941.20 best | Chordopox_A20R | 88.0 | 8.70e-25 | 100.0% | 22.9% |
D3
high
residues 308-425
D4
medium
residues 1-56
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF05941.20 best | Chordopox_A20R | 80.5 | 1.70e-22 | 100.0% | 16.7% |
CATH (38)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4od8D00 | 6.10.140.1880 | Special › Helix non-globular › Helix Hairpins › | 0.91 | 77.0 | 8.12e-01 | 89.3% | 98.0% |
| 3k3oA02 | 1.20.58.1360 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.82 | 70.0 | 6.03e-01 | 92.9% | 95.2% |
| 2kw6A00 | 6.10.140.1300 | Special › Helix non-globular › Helix Hairpins › | 0.75 | 54.0 | 5.19e-01 | 76.8% | 66.2% |
| 1rq5A02 | 1.50.10.10 | Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › | 0.74 | 64.0 | 3.73e-01 | 100.0% | 23.6% |
| 3gt5A00 | 1.50.10.10 | Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › | 0.73 | 57.0 | 3.48e-01 | 89.3% | 24.8% |
| 2pbiA02 | 1.10.1240.60 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › | 0.72 | 55.0 | 4.45e-01 | 80.4% | 45.5% |
| 1y74A00 | 1.10.287.650 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › L27 domain | 0.71 | 49.0 | 4.89e-01 | 71.4% | 78.9% |
| 2vxgA02 | 1.10.220.100 | Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › conserved c-terminal region of ge- 1 | 0.68 | 58.0 | 5.05e-01 | 94.6% | 78.8% |
| 2ccyA00 | 1.20.120.10 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 | 0.68 | 57.0 | 4.51e-01 | 100.0% | 81.9% |
| 2p61A00 | 1.20.120.490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hypothetical protein TM1646-like domain | 0.67 | 57.0 | 4.65e-01 | 100.0% | 76.3% |
| 4hbdA00 | 1.25.40.20 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ankyrin repeat-containing domain | 0.67 | 52.0 | 3.40e-01 | 85.7% | 30.6% |
| 1krrA00 | 2.160.10.10 | Mainly Beta › 3 Solenoid › UDP N-Acetylglucosamine Acyltransferase; domain 1 › Hexapeptide repeat proteins | 0.67 | 48.0 | 3.34e-01 | 78.6% | 49.5% |
| 7xrxB01 | 1.20.1420.20 | Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › M75 peptidase, HXXE motif | 0.67 | 57.0 | 3.47e-01 | 100.0% | 41.7% |
| 4agsB04 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.66 | 55.0 | 4.29e-01 | 96.4% | 63.2% |
| 1sz9C00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.66 | 55.0 | 4.15e-01 | 94.6% | 71.4% |
| 4exjA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.66 | 56.0 | 4.38e-01 | 94.6% | 68.6% |
| 3vw5A00 | 1.50.10.10 | Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › | 0.66 | 57.0 | 3.48e-01 | 100.0% | 27.0% |
| 4b7yD00 | 3.30.40.10 | Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) | 0.65 | 56.0 | 4.75e-01 | 100.0% | 99.0% |
| 3iqcA00 | 1.20.120.340 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS | 0.65 | 52.0 | 4.27e-01 | 96.4% | 66.4% |
| 1j1jA02 | 1.20.58.200 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 | 0.64 | 53.0 | 4.74e-01 | 98.2% | 90.6% |
| 2ptfB02 | 1.20.58.290 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. | 0.64 | 53.0 | 5.28e-01 | 94.6% | 100.0% |
| 4it4A02 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.63 | 52.0 | 4.62e-01 | 100.0% | 83.5% |
| 4hehA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.63 | 49.0 | 4.34e-01 | 85.7% | 91.6% |
| 4hz4A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.63 | 50.0 | 4.16e-01 | 94.6% | 58.9% |
| 4b94A00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.62 | 50.0 | 3.91e-01 | 94.6% | 43.3% |
| 2dpmA02 | 1.10.1020.10 | Mainly Alpha › Orthogonal Bundle › Adenine-specific Methyltransferase; domain 2 › Adenine-specific Methyltransferase, Domain 2 | 0.62 | 45.0 | 3.69e-01 | 76.8% | 98.1% |
| 1jswA01 | 1.10.275.10 | Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) | 0.62 | 44.0 | 3.40e-01 | 76.8% | 31.4% |
| 1y71A00 | 2.30.30.430 | Mainly Beta › Roll › SH3 type barrels. › Kinase associated protein B domain | 0.62 | 44.0 | 3.59e-01 | 76.8% | 88.1% |
| 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 | 0.61 | 43.0 | 4.49e-01 | 76.8% | 83.7% |
| 3cx5A02 | 3.30.830.10 | Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like | 0.61 | 46.0 | 3.07e-01 | 80.4% | 62.3% |
| 2o7gA00 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.61 | 47.0 | 4.12e-01 | 87.5% | 72.7% |
| 1jr8A00 | 1.20.120.310 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain | 0.60 | 45.0 | 3.78e-01 | 83.9% | 88.6% |
| 1ka1A01 | 3.30.540.10 | Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 | 0.60 | 50.0 | 3.44e-01 | 96.4% | 49.3% |
| 1oqcA00 | 1.20.120.310 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain | 0.58 | 43.0 | 3.57e-01 | 83.9% | 84.8% |
| 6f1eA01 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.57 | 41.0 | 3.18e-01 | 78.6% | 35.3% |
| 6qdjA01 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.54 | 38.0 | 3.47e-01 | 85.7% | 55.3% |
| 4jvyB00 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.54 | 38.0 | 2.80e-01 | 80.4% | 94.2% |
| 6cy5A01 | 1.20.120.140 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain | 0.50 | 43.0 | 3.71e-01 | 98.2% | 60.7% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3928221 | 4.1.1.310 ↗ | beta barrels › SH3 › SH3 › SH3 › PF26050 | 0.89 | 65.0 | 4.70e-01 | 76.8% | 35.7% |
| 3998272 | 7.1.1.1 ↗ | beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ | 0.82 | 57.0 | 4.91e-01 | 73.2% | 49.4% |
| 3901041 | 109.4.1.791 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_17 | 0.81 | 70.0 | 4.50e-01 | 94.6% | 27.5% |
| 4337722 | 3001.1.1.1 ↗ | alpha arrays › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › THDPS_N_2 | 0.80 | 61.0 | 5.31e-01 | 82.1% | 81.2% |
| 3510759 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.79 | 60.0 | 5.17e-01 | 80.4% | 56.5% |
| 2665702 | 3146.1.1.3 ↗ | a+b complex topology › gH main domain › gH main domain › gH main domain › Phage_glycop_gL | 0.79 | 56.0 | 4.40e-01 | 75.0% | 50.4% |
| 3185412 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.78 | 68.0 | 5.51e-01 | 98.2% | 63.8% |
| 4927432 | 616.1.1.0 ↗ | alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain | 0.77 | 59.0 | 5.22e-01 | 82.1% | 93.8% |
| 3172910 | 603.1.1.99 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27021 | 0.75 | 66.0 | 5.39e-01 | 100.0% | 93.3% |
| 3265360 | 267.1.1.0 ↗ | a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain | 0.75 | 58.0 | 4.14e-01 | 83.9% | 33.8% |
| 4987741 | 109.2.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid | 0.74 | 64.0 | 3.97e-01 | 96.4% | 25.6% |
| 4567957 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.74 | 65.0 | 5.15e-01 | 100.0% | 87.0% |
| 3596822 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.71 | 59.0 | 4.76e-01 | 92.9% | 74.5% |
| 3415313 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.70 | 56.0 | 3.51e-01 | 91.1% | 23.7% |
| 3786764 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.70 | 59.0 | 3.51e-01 | 100.0% | 24.4% |
| 4134938 | 601.3.1.14 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PF27870 | 0.70 | 61.0 | 4.86e-01 | 100.0% | 58.3% |
| 5028635 | 304.28.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain | 0.69 | 50.0 | 3.74e-01 | 76.8% | 78.6% |
| 3720429 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.69 | 57.0 | 3.18e-01 | 96.4% | 7.8% |
| 3756605 | 192.18.1.0 ↗ | alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like | 0.69 | 51.0 | 4.70e-01 | 78.6% | 64.3% |
| 4586670 | 208.1.1.10 ↗ | beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Mac,Hexapep_2 | 0.68 | 50.0 | 3.48e-01 | 78.6% | 54.1% |
| 4033773 | 208.1.1.13 ↗ | beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Hexapep,Mac,Hexapep_2 | 0.67 | 49.0 | 3.39e-01 | 78.6% | 51.3% |
| 3483986 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.66 | 57.0 | 4.77e-01 | 96.4% | 96.8% |
| 3535566 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.64 | 56.0 | 4.37e-01 | 100.0% | 81.6% |
| 3825716 | 375.1.1.26 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 | 0.64 | 51.0 | 4.24e-01 | 98.2% | 88.3% |
| 4547014 | 3997.1.1.1 ↗ | alpha arrays › Helical insertion domain in magnesium chelatase catalytic subunit › Helical insertion domain in magnesium chelatase catalytic subunit › Helical insertion domain in magnesium chelatase catalytic subunit › CobN-Mg_chel | 0.64 | 48.0 | 3.36e-01 | 85.7% | 27.6% |
| 3488007 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.64 | 52.0 | 3.89e-01 | 92.9% | 48.7% |
| 3627775 | 109.4.1.267 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CIP2A_N | 0.64 | 52.0 | 3.44e-01 | 100.0% | 24.6% |
| 3514696 | 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 | 0.63 | 45.0 | 2.88e-01 | 76.8% | 14.5% |
| 5028293 | 3352.1.1.0 ↗ | alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain | 0.63 | 52.0 | 3.18e-01 | 92.9% | 43.8% |
| 3476318 | 109.34.1.1 ↗ | alpha superhelices › Repetitive alpha hairpins › 26S proteasome subunit Rpn2 N-terminal domain › 26S proteasome subunit Rpn2 N-terminal domain › RPN1_RPN2_N | 0.63 | 48.0 | 3.03e-01 | 85.7% | 34.0% |
| 3284612 | 604.10.1.10 ↗ | alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac › PF30641 | 0.60 | 48.0 | 4.18e-01 | 98.2% | 86.0% |
| 4929433 | 223.1.1.0 ↗ | a+b three layers › Profilin-like › sensor domains › sensor domains | 0.59 | 44.0 | 3.63e-01 | 80.4% | 56.2% |
| 3540735 | 904.1.1.22 ↗ | few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box, TRIM_CC | 0.57 | 40.0 | 2.82e-01 | 76.8% | 21.0% |
| 5000931 | 244.4.1.2 ↗ | a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › NiFeSe_Hases | 0.55 | 39.0 | 2.75e-01 | 78.6% | 22.2% |
| 3341228 | 109.4.1.27 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › W2 | 0.55 | 44.0 | 3.80e-01 | 92.9% | 77.9% |
| 4385513 | 101.1.1.228 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Eaf7 | 0.53 | 40.0 | 3.63e-01 | 83.9% | 85.0% |