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YP_010772627.1
Arc-VirNC_074650__YP_010772627.1__QIT47-gp09__00009
Identity
- Accession:
- NC_074650 ↗
- Protein ID:
- YP_010772627.1 ↗
- Kingdom:
- archaea
Quality
81.5
mean pLDDT
Taxonomy
Abadenavirae›
Produgelaviricota›
Belvinaviricetes›
Coyopavirales›
Chaacviridae›
Homochaacvirus›
Methanophagales_virus_PBV304
TaxID: 3071309
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
medium
residues 3-122
D2
medium
residues 268-360
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3lcnB00 | 1.10.340.40 | Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain | 0.62 | 37.0 | 3.73e-01 | 75.3% | 56.7% |
| 4fcyA01 | 1.10.10.60 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like | 0.61 | 32.0 | 3.45e-01 | 72.0% | 57.7% |
| 4o5vA01 | 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 | 0.60 | 31.0 | 3.47e-01 | 71.0% | 62.0% |
| 1qdmA03 | 1.10.225.10 | Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like | 0.58 | 32.0 | 3.51e-01 | 73.1% | 63.6% |
| 3kzqA00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.57 | 39.0 | 3.07e-01 | 71.0% | 73.3% |
| 1t98A01 | 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 | 0.57 | 36.0 | 3.79e-01 | 73.1% | 69.0% |
| 4a8eA01 | 1.10.150.130 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain | 0.56 | 31.0 | 3.23e-01 | 72.0% | 56.3% |
| 4go1A01 | 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 | 0.54 | 29.0 | 3.53e-01 | 71.0% | 87.0% |
| 1vpdA02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.52 | 37.0 | 3.41e-01 | 76.3% | 93.9% |
| 3onjA00 | 1.20.58.400 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins | 0.50 | 35.0 | 3.47e-01 | 72.0% | 82.5% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3304429 | 604.9.1.0 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 | 0.60 | 38.0 | 4.34e-01 | 74.2% | 89.2% |
| 3287061 | 138.1.1.0 ↗ | alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain | 0.59 | 41.0 | 3.77e-01 | 76.3% | 55.0% |
| 3806239 | 616.1.1.0 ↗ | alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain | 0.57 | 40.0 | 4.35e-01 | 77.4% | 89.3% |
| 3671851 | 5086.1.1.47 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Auxin_canalis | 0.56 | 39.0 | 3.47e-01 | 72.0% | 51.1% |
| 3642673 | 3922.1.1.7 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Auxin_canalis | 0.55 | 38.0 | 3.22e-01 | 72.0% | 49.1% |
| 3436831 | 601.4.1.52 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › Auxin_canalis | 0.51 | 36.0 | 3.26e-01 | 74.2% | 59.2% |
D3
medium
residues 493-532
Domain cluster:
representative
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3e3vA03 | 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 | 0.80 | 70.0 | 6.27e-01 | 100.0% | 82.1% |
| 3d5lB01 | 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 | 0.77 | 66.0 | 4.93e-01 | 100.0% | 40.2% |
| 3ne5B04 | 6.10.140.730 | Special › Helix non-globular › Helix Hairpins › | 0.76 | 62.0 | 5.87e-01 | 97.5% | 90.2% |
| 3dfgA03 | 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 | 0.73 | 59.0 | 5.59e-01 | 92.5% | 87.5% |
| 3on3B00 | 3.40.920.10 | Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III | 0.69 | 55.0 | 3.75e-01 | 100.0% | 85.7% |
| 1p6rA00 | 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 | 0.66 | 54.0 | 4.45e-01 | 100.0% | 48.8% |
| 2vixA02 | 1.10.150.630 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.61 | 47.0 | 3.96e-01 | 100.0% | 69.7% |
| 1dd9A03 | 1.20.50.20 | Mainly Alpha › Up-down Bundle › Pheromone ER-1 › DnaG, RNA polymerase domain, helical bundle | 0.59 | 42.0 | 3.90e-01 | 85.0% | 59.3% |
| 2hdoA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.57 | 48.0 | 4.18e-01 | 97.5% | 73.4% |
| 3onqA01 | 1.20.5.5100 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.57 | 45.0 | 4.51e-01 | 90.0% | 90.5% |
| 6hxpA01 | 1.10.230.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 | 0.53 | 43.0 | 3.36e-01 | 97.5% | 90.9% |
| 3czpB01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.51 | 39.0 | 2.59e-01 | 97.5% | 23.0% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3283685 | 101.35.1.0 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX | 0.92 | 78.0 | 7.86e-01 | 92.5% | 92.5% |
| 4392311 | 101.35.1.1 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 | 0.82 | 71.0 | 6.92e-01 | 100.0% | 91.1% |
| 4167193 | 101.35.1.1 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 | 0.82 | 72.0 | 6.95e-01 | 100.0% | 91.1% |
| 3818442 | 509.1.1.1 ↗ | alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH | 0.81 | 73.0 | 5.75e-01 | 100.0% | 65.0% |
| 3618803 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.79 | 72.0 | 6.21e-01 | 100.0% | 66.7% |
| 3813335 | 509.1.1.1 ↗ | alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH | 0.79 | 70.0 | 5.32e-01 | 100.0% | 55.6% |
| 3244407 | 101.35.1.0 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX | 0.78 | 66.0 | 5.87e-01 | 100.0% | 71.7% |
| 3737108 | 509.1.1.1 ↗ | alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain › PAH | 0.76 | 63.0 | 5.39e-01 | 92.5% | 63.1% |
| 1883360 | 1101.1.1.1 ↗ | alpha bundles › Uncharacterized protein LPG2271 › Uncharacterized protein LPG2271 › Uncharacterized protein LPG2271 › DUF5638 | 0.74 | 63.0 | 4.68e-01 | 100.0% | 40.2% |
| 4543881 | 103.1.1.0 ↗ | alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain | 0.70 | 49.0 | 4.75e-01 | 75.0% | 71.1% |
| 5032990 | 7000.1.1.0 ↗ | alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS | 0.66 | 53.0 | 4.59e-01 | 100.0% | 67.1% |
| 3892703 | 110.1.1.0 ↗ | alpha arrays › DEATH domain › DEATH domain › DEATH domain | 0.64 | 54.0 | 4.09e-01 | 97.5% | 47.0% |
| 3513576 | 101.1.1.76 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Integrase_H2C2 | 0.63 | 48.0 | 4.56e-01 | 100.0% | 70.9% |
| 3573254 | 101.1.17.0 ↗ | alpha arrays › HTH › HTH › FF domain | 0.62 | 49.0 | 4.97e-01 | 92.5% | 97.5% |
| 3512113 | 2005.1.1.18 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › NAD_synthase | 0.62 | 49.0 | 2.94e-01 | 100.0% | 13.9% |
| 5041744 | 2004.1.3.1 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR | 0.62 | 49.0 | 3.42e-01 | 100.0% | 90.0% |
| 5030596 | 3826.1.1.0 ↗ | alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) | 0.57 | 39.0 | 3.48e-01 | 77.5% | 46.2% |