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HQ634156.1__AGH31981.1__VPIG_00124__00123
Bact-VirHQ634156.1__AGH31981.1__VPIG_00124__00123
Identity
- Accession:
- HQ634156 ↗
- Kingdom:
- phage
Quality
93.3
mean pLDDT
Cluster
View cluster (9 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 174-288
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF04381.18 best | RdgC | 26.0 | 7.80e-06 | 99.1% | 28.5% |
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1j8bA00 | 3.30.1310.10 | Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain | 0.64 | 37.0 | 4.09e-01 | 100.0% | 70.7% |
| 3f42A00 | 3.30.1310.10 | Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain | 0.61 | 37.0 | 4.09e-01 | 100.0% | 73.1% |
| 1ybxA00 | 3.30.1310.10 | Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain | 0.60 | 36.0 | 4.01e-01 | 99.1% | 74.7% |
| 2m3xC02 | 2.40.10.360 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.58 | 26.0 | 3.19e-01 | 73.0% | 65.2% |
| 4g7nA02 | 3.30.1120.130 | Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › | 0.57 | 36.0 | 3.91e-01 | 95.7% | 75.3% |
| 2wp8A00 | 3.30.230.70 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain | 0.55 | 47.0 | 3.68e-01 | 94.8% | 78.8% |
| 5kcoA01 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.52 | 26.0 | 3.42e-01 | 94.8% | 91.5% |
| 3tu3B01 | 3.30.720.80 | Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › | 0.52 | 28.0 | 3.32e-01 | 95.7% | 76.3% |
| 1avaA02 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.51 | 25.0 | 3.25e-01 | 87.8% | 87.9% |
| 3pqhA01 | 2.20.220.20 | Mainly Beta › Single Sheet › Glycosyl hydrolase fold › | 0.50 | 26.0 | 3.39e-01 | 74.8% | 93.3% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3963537 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.94 | 91.0 | 6.41e-01 | 100.0% | 42.1% |
| 4562263 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.92 | 88.0 | 6.19e-01 | 100.0% | 42.8% |
| 4886009 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.91 | 87.0 | 6.18e-01 | 100.0% | 42.3% |
| 331637 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.91 | 86.0 | 6.09e-01 | 100.0% | 41.8% |
| 4208499 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.90 | 86.0 | 6.09e-01 | 100.0% | 42.1% |
| 4955607 | 3435.1.1.0 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC | 0.76 | 62.0 | 4.96e-01 | 100.0% | 46.0% |
| 4067567 | 245.2.1.1 ↗ | a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd | 0.69 | 40.0 | 4.35e-01 | 100.0% | 68.4% |
| 4527834 | 245.2.1.1 ↗ | a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd | 0.69 | 40.0 | 5.05e-01 | 100.0% | 100.0% |
| 4938262 | 3435.1.1.10 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › PF27341 | 0.67 | 59.0 | 4.71e-01 | 100.0% | 48.9% |
| 4498285 | 245.2.1.1 ↗ | a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd | 0.67 | 39.0 | 4.25e-01 | 100.0% | 69.5% |
| 3199398 | 331.19.1.3 ↗ | a+b two layers › TBP-like › Toxin RnlA N-terminal domains › Toxin RnlA N-terminal domains › CPSF73-100_C | 0.61 | 38.0 | 4.44e-01 | 100.0% | 90.0% |
| 4454311 | 245.2.1.1 ↗ | a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd | 0.60 | 38.0 | 4.00e-01 | 77.4% | 71.0% |
| 3713327 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.58 | 46.0 | 3.83e-01 | 100.0% | 47.1% |
| 1141859 | 5.1.10.1 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed › DUF6849 | 0.56 | 25.0 | 3.11e-01 | 73.0% | 63.9% |
| 3612075 | 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 | 46.0 | 3.85e-01 | 100.0% | 50.0% |
| 4668665 | 331.2.1.8 ↗ | a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › CPSF73-100_C | 0.55 | 37.0 | 4.08e-01 | 100.0% | 86.7% |
| 3386275 | 809.2.1.1 ↗ | a+b two layers › BLIP-like › BT0923-like › BT0923-like › PepSY_like | 0.54 | 28.0 | 3.60e-01 | 73.0% | 93.3% |
D2
medium
residues 1-15_34-70_130-154
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3w9kA00 | 3.30.530.20 | Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain | 0.57 | 49.0 | 4.14e-01 | 97.4% | 87.4% |
| 6qk7A01 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.57 | 45.0 | 2.91e-01 | 84.4% | 100.0% |
| 2n54B00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.57 | 34.0 | 3.65e-01 | 85.7% | 69.7% |
| 4xpmB00 | 3.40.1840.10 | Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like | 0.56 | 38.0 | 4.09e-01 | 76.6% | 82.1% |
| 4amcA01 | 2.30.30.20 | Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain | 0.54 | 29.0 | 3.51e-01 | 79.2% | 84.8% |
| 4j27A02 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.53 | 36.0 | 3.47e-01 | 100.0% | 61.8% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4031431 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.61 | 47.0 | 5.05e-01 | 96.1% | 100.0% |
| 4662938 | 222.1.1.0 ↗ | a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase | 0.59 | 34.0 | 3.64e-01 | 87.0% | 67.7% |
| 5002867 | 331.1.1.0 ↗ | a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like | 0.58 | 50.0 | 4.74e-01 | 100.0% | 81.1% |
| 3741883 | 604.3.1.11 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 | 0.57 | 47.0 | 3.39e-01 | 98.7% | 30.2% |
| 3914736 | 4357.1.1.1 ↗ | beta barrels › WWE domain › WWE domain › WWE domain › WWE | 0.56 | 41.0 | 4.44e-01 | 85.7% | 90.8% |
| 3302278 | 1.1.1.27 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp, TAXi_N | 0.55 | 41.0 | 3.12e-01 | 83.1% | 70.5% |
| 3736787 | 331.3.1.2 ↗ | a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A | 0.54 | 46.0 | 3.23e-01 | 100.0% | 43.2% |
| 3912708 | 4357.1.1.1 ↗ | beta barrels › WWE domain › WWE domain › WWE domain › WWE | 0.54 | 39.0 | 4.13e-01 | 85.7% | 85.7% |
| 5004050 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.53 | 27.0 | 2.88e-01 | 70.1% | 54.3% |
| 3821273 | 1.1.1.27 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp, TAXi_N | 0.53 | 42.0 | 3.06e-01 | 85.7% | 78.6% |
| 3470449 | 4357.1.1.0 ↗ | beta barrels › WWE domain › WWE domain › WWE domain | 0.53 | 39.0 | 3.92e-01 | 85.7% | 76.2% |
| 4024902 | 1.1.1.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease | 0.51 | 39.0 | 2.51e-01 | 84.4% | 46.5% |
| 4991389 | 10.1.1.117 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Thermopsin | 0.50 | 34.0 | 2.38e-01 | 71.4% | 23.4% |
| 4026285 | 1.1.1.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp | 0.50 | 38.0 | 2.52e-01 | 83.1% | 32.5% |
D3
medium
residues 16-33_71-129
Domain cluster:
representative
CATH (11)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4ywoA01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.67 | 49.0 | 3.55e-01 | 76.6% | 40.6% |
| 3cdlB02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.67 | 46.0 | 3.80e-01 | 70.1% | 91.7% |
| 3u9rB02 | 3.90.226.10 | Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 | 0.67 | 48.0 | 3.36e-01 | 76.6% | 27.0% |
| 1gvfB00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.65 | 48.0 | 3.27e-01 | 79.2% | 95.6% |
| 4xomB00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.62 | 42.0 | 3.07e-01 | 70.1% | 37.6% |
| 1t11A02 | 1.10.3120.10 | Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain | 0.60 | 43.0 | 3.39e-01 | 76.6% | 36.1% |
| 6igsB00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.57 | 40.0 | 3.12e-01 | 72.7% | 97.6% |
| 4evxA00 | 1.10.1740.240 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › | 0.56 | 39.0 | 3.62e-01 | 72.7% | 88.7% |
| 2kw7A00 | 3.10.310.50 | Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › | 0.54 | 38.0 | 3.10e-01 | 75.3% | 70.7% |
| 2xokP00 | 1.20.20.10 | Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C | 0.53 | 36.0 | 3.66e-01 | 70.1% | 81.1% |
| 1x9zA01 | 3.30.1540.20 | Alpha Beta › 2-Layer Sandwich › formyl-coa transferase, domain 3 › MutL, C-terminal domain, dimerisation subdomain | 0.53 | 39.0 | 3.66e-01 | 77.9% | 77.4% |
ECOD (22)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4208499 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.86 | 80.0 | 5.19e-01 | 100.0% | 37.2% |
| 4562263 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.85 | 78.0 | 5.08e-01 | 100.0% | 37.2% |
| 3963537 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.84 | 77.0 | 5.03e-01 | 100.0% | 37.1% |
| 4886009 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.83 | 75.0 | 4.95e-01 | 100.0% | 37.0% |
| 331637 | 3435.1.1.1 ↗ | a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › RdgC | 0.82 | 74.0 | 4.87e-01 | 100.0% | 37.3% |
| 3961186 | 103.9.1.0 ↗ | alpha arrays › RuvA-C › RanGAP2 N-terminal domain › RanGAP2 N-terminal domain | 0.79 | 55.0 | 4.99e-01 | 71.4% | 84.0% |
| 3248805 | 5076.1.1.1 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr | 0.73 | 56.0 | 3.70e-01 | 81.8% | 67.9% |
| 3592370 | 150.5.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like | 0.72 | 50.0 | 4.34e-01 | 72.7% | 85.8% |
| 3727164 | 5076.1.1.1 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr | 0.71 | 58.0 | 3.90e-01 | 88.3% | 37.9% |
| 3829752 | 5076.1.1.1 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr | 0.71 | 57.0 | 3.81e-01 | 87.0% | 64.3% |
| 3269813 | 5076.1.1.1 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr | 0.71 | 58.0 | 3.87e-01 | 89.6% | 60.0% |
| 4934221 | 148.1.3.20 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_2 | 0.69 | 45.0 | 4.69e-01 | 76.6% | 72.9% |
| 3708636 | 7060.1.1.1 ↗ | alpha arrays › ELMO domain › ELMO domain › ELMO domain › ELMO_CED12 | 0.66 | 44.0 | 3.14e-01 | 70.1% | 37.9% |
| 1628548 | 148.1.3.17 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › MCM_lid | 0.66 | 47.0 | 4.30e-01 | 74.0% | 64.6% |
| 3347379 | 3470.1.1.26 ↗ | extended segments › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › DUF543 | 0.66 | 44.0 | 4.75e-01 | 70.1% | 93.8% |
| 3698320 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.64 | 45.0 | 3.31e-01 | 74.0% | 34.1% |
| 4541657 | 547.1.1.1 ↗ | alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer | 0.63 | 44.0 | 4.43e-01 | 74.0% | 81.2% |
| 3867818 | 7516.1.1.130 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › PF30737 | 0.62 | 45.0 | 2.91e-01 | 77.9% | 31.2% |
| 5023792 | 148.1.3.19 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_3 | 0.62 | 44.0 | 3.95e-01 | 75.3% | 67.3% |
| 5017842 | 5058.1.1.0 ↗ | alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region | 0.61 | 41.0 | 4.02e-01 | 70.1% | 68.2% |
| 3966542 | 2486.1.1.0 ↗ | a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase | 0.61 | 43.0 | 2.98e-01 | 74.0% | 25.7% |
| 3164403 | 589.1.1.1 ↗ | alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › SurA_N | 0.58 | 45.0 | 3.59e-01 | 89.6% | 68.0% |