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putative_radical_SAM_enzyme
Euk-VirAcanthamoeba_polyphaga_mimivirus
putative_radical_SAM_enzyme__YP_003987286__Acanthamoeba_polyphaga_mimivirus__212035
Identity
- Accession:
- YP_003987286 ↗
- Protein ID:
- putative_radical_SAM_enzyme
- Kingdom:
- euk
Quality
74.4
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Imitervirales›
Mimiviridae›
Mimivirus›
Acanthamoeba_polyphaga_mimivirus
TaxID: 212035
Cluster
View cluster (11 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 1-180
Domain cluster:
rep: CG_2015-01t_scaffold_1_prodigal-single.1__X__X__00433__D1-174_270-285
CATH (43)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2yx0A00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.65 | 60.0 | 4.89e-01 | 100.0% | 64.5% |
| 4mzyA02 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.63 | 42.0 | 4.36e-01 | 87.8% | 70.8% |
| 2bb0A02 | 3.20.20.140 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases | 0.61 | 49.0 | 4.13e-01 | 83.9% | 54.0% |
| 3dciA00 | 3.40.50.1110 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase | 0.60 | 48.0 | 4.61e-01 | 83.3% | 89.9% |
| 1j93A00 | 3.20.20.210 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › | 0.60 | 50.0 | 4.07e-01 | 89.4% | 71.7% |
| 2d73A02 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.60 | 50.0 | 4.13e-01 | 88.9% | 62.5% |
| 3rdkB00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.59 | 54.0 | 4.37e-01 | 99.4% | 71.3% |
| 4gxwB00 | 3.20.20.140 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases | 0.58 | 50.0 | 3.94e-01 | 90.6% | 52.5% |
| 3uueA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.58 | 53.0 | 4.54e-01 | 97.8% | 80.3% |
| 3rq1A02 | 3.40.640.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) | 0.58 | 45.0 | 4.07e-01 | 81.1% | 62.8% |
| 6uczB00 | 3.20.20.20 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Dihydropteroate synthase-like | 0.57 | 48.0 | 4.17e-01 | 88.3% | 61.1% |
| 2wagA00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.56 | 44.0 | 4.15e-01 | 88.9% | 67.7% |
| 4dnhA01 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.56 | 48.0 | 3.71e-01 | 90.6% | 68.8% |
| 4beqA02 | 3.20.20.10 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Alanine racemase | 0.56 | 43.0 | 4.03e-01 | 90.0% | 65.9% |
| 1c3fA00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.56 | 45.0 | 3.97e-01 | 85.6% | 60.0% |
| 4pcfC00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.55 | 46.0 | 4.22e-01 | 90.0% | 69.3% |
| 2i6qA01 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.55 | 44.0 | 4.19e-01 | 88.3% | 71.2% |
| 6jowA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.54 | 50.0 | 3.80e-01 | 99.4% | 65.0% |
| 4o53A00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.54 | 45.0 | 4.08e-01 | 89.4% | 68.9% |
| 5jbkA00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.54 | 48.0 | 3.60e-01 | 97.2% | 86.5% |
| 2pe4A00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.54 | 49.0 | 3.76e-01 | 99.4% | 59.0% |
| 2nutA03 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.54 | 45.0 | 4.02e-01 | 89.4% | 80.3% |
| 1o5xA00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.54 | 45.0 | 4.08e-01 | 90.0% | 69.5% |
| 2l82A00 | 3.40.50.11230 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.54 | 36.0 | 3.79e-01 | 77.8% | 74.7% |
| 2ziuB01 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.53 | 37.0 | 4.06e-01 | 94.4% | 85.2% |
| 3e2vB00 | 3.20.20.140 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases | 0.53 | 47.0 | 3.77e-01 | 96.1% | 76.2% |
| 3fndA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.53 | 48.0 | 4.24e-01 | 98.9% | 68.5% |
| 1t7lA02 | 3.20.20.210 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › | 0.53 | 45.0 | 3.64e-01 | 91.7% | 82.8% |
| 3i9v102 | 3.40.50.11540 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NADH-ubiquinone oxidoreductase 51kDa subunit | 0.53 | 39.0 | 3.94e-01 | 91.7% | 76.5% |
| 3eebA00 | 3.40.50.11050 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › MARTX cysteine protease (CPD) domain | 0.52 | 48.0 | 4.60e-01 | 98.9% | 90.2% |
| 2nutB04 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.52 | 45.0 | 4.11e-01 | 92.2% | 80.5% |
| 1m2vB04 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.52 | 45.0 | 4.16e-01 | 93.3% | 78.8% |
| 2vptA00 | 3.40.50.1110 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase | 0.52 | 46.0 | 4.43e-01 | 95.0% | 87.6% |
| 3slkA01 | 3.40.50.11460 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.52 | 39.0 | 3.97e-01 | 77.8% | 84.2% |
| 3tc3B00 | 3.20.20.150 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes | 0.51 | 46.0 | 3.94e-01 | 97.2% | 73.8% |
| 4y9dA00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.51 | 42.0 | 3.89e-01 | 87.8% | 80.0% |
| 3ksuB00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.51 | 42.0 | 3.93e-01 | 87.2% | 82.5% |
| 2x5nA01 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.51 | 43.0 | 4.34e-01 | 90.0% | 95.5% |
| 3v8bC00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.51 | 42.0 | 3.75e-01 | 88.9% | 85.5% |
| 2ewfA03 | 3.40.91.50 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.50 | 41.0 | 3.85e-01 | 86.7% | 75.1% |
| 5g4kA00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.50 | 42.0 | 3.70e-01 | 88.9% | 80.3% |
| 4e19A00 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.50 | 33.0 | 3.75e-01 | 85.0% | 86.5% |
| 2yogA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.50 | 37.0 | 3.66e-01 | 86.1% | 70.6% |
ECOD (53)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4380787 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.68 | 50.0 | 4.17e-01 | 97.8% | 43.9% |
| 5060543 | 2002.1.1.414 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Wyosine_form | 0.68 | 59.0 | 4.89e-01 | 92.8% | 61.9% |
| 4185100 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.68 | 50.0 | 4.07e-01 | 97.8% | 41.2% |
| 4183574 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.67 | 48.0 | 3.98e-01 | 97.8% | 42.3% |
| 4356341 | 2002.1.1.121 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM,Mob_synth_C | 0.67 | 50.0 | 4.06e-01 | 97.8% | 42.1% |
| 3326303 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.65 | 52.0 | 4.28e-01 | 84.4% | 48.1% |
| 5080126 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.65 | 47.0 | 3.91e-01 | 96.1% | 43.6% |
| 3286714 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.64 | 52.0 | 4.26e-01 | 85.6% | 47.9% |
| 5027330 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.63 | 52.0 | 4.24e-01 | 99.4% | 47.4% |
| 3940429 | 2002.1.1.30 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 | 0.59 | 50.0 | 4.09e-01 | 90.0% | 54.4% |
| 4983583 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.59 | 48.0 | 3.93e-01 | 88.3% | 65.0% |
| 4998410 | 2002.1.1.57 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › URO-D | 0.59 | 50.0 | 3.91e-01 | 90.6% | 69.7% |
| 3928154 | 2006.1.6.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like | 0.59 | 44.0 | 4.06e-01 | 88.3% | 60.4% |
| 5045128 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.58 | 48.0 | 3.93e-01 | 88.3% | 63.4% |
| 4312768 | 2002.1.1.3 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TIM | 0.57 | 49.0 | 4.31e-01 | 90.6% | 66.5% |
| 3972156 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.57 | 50.0 | 3.95e-01 | 97.2% | 45.6% |
| 3184110 | 2002.1.1.41 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › A_deaminase | 0.57 | 50.0 | 3.81e-01 | 93.3% | 64.7% |
| 4939229 | 2006.1.6.45 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › PF30231 | 0.57 | 42.0 | 4.06e-01 | 90.0% | 67.3% |
| 3508968 | 2496.1.1.1 ↗ | a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › CRAL_TRIO | 0.56 | 47.0 | 4.46e-01 | 91.1% | 75.2% |
| 4948557 | 2002.1.1.101 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Orn_Arg_deC_N | 0.56 | 50.0 | 4.19e-01 | 95.0% | 64.2% |
| 4943534 | 2002.1.1.101 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Orn_Arg_deC_N | 0.56 | 48.0 | 4.26e-01 | 91.7% | 70.4% |
| 3955549 | 2005.1.1.0 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains | 0.56 | 29.0 | 3.45e-01 | 75.0% | 71.7% |
| 4958528 | 2006.1.6.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like | 0.56 | 43.0 | 3.70e-01 | 90.0% | 49.5% |
| 3624992 | 2496.1.1.1 ↗ | a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › CRAL_TRIO | 0.55 | 45.0 | 4.36e-01 | 90.6% | 76.6% |
| 3493126 | 2004.1.1.189 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_16 | 0.55 | 40.0 | 3.92e-01 | 75.6% | 75.6% |
| 3320953 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.55 | 47.0 | 4.14e-01 | 90.6% | 65.8% |
| 4437890 | 2002.1.1.186 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Melibiase_2 | 0.55 | 46.0 | 3.66e-01 | 90.0% | 55.1% |
| 5076556 | 2006.1.6.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like | 0.55 | 46.0 | 4.06e-01 | 89.4% | 62.7% |
| 3970707 | 2486.1.1.0 ↗ | a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase | 0.54 | 44.0 | 3.92e-01 | 87.2% | 76.0% |
| 3574194 | 2496.1.1.1 ↗ | a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like › CRAL_TRIO | 0.54 | 45.0 | 4.34e-01 | 91.1% | 78.1% |
| 5046299 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.54 | 49.0 | 4.18e-01 | 99.4% | 91.0% |
| 3587896 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.53 | 47.0 | 3.92e-01 | 93.3% | 66.0% |
| 4969256 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.53 | 45.0 | 3.83e-01 | 88.9% | 65.7% |
| 3672327 | 2007.1.3.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like | 0.53 | 39.0 | 4.17e-01 | 93.3% | 89.3% |
| 3269898 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.53 | 46.0 | 3.90e-01 | 94.4% | 57.5% |
| 3199298 | 2006.1.6.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Ku_N | 0.52 | 45.0 | 4.00e-01 | 92.8% | 72.3% |
| 3698441 | 2003.1.1.143 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NmrA, NAD_binding_10 | 0.52 | 46.0 | 3.79e-01 | 95.0% | 89.8% |
| 5051449 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.52 | 46.0 | 4.12e-01 | 97.8% | 76.2% |
| 5072474 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.51 | 46.0 | 3.73e-01 | 96.7% | 57.6% |
| 3576117 | 2484.1.1.26 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi | 0.51 | 43.0 | 4.31e-01 | 89.4% | 95.2% |
| 3800450 | 2003.1.5.13 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth | 0.51 | 39.0 | 3.06e-01 | 77.8% | 43.2% |
| 5003681 | 2002.1.1.25 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › HMGL-like | 0.51 | 46.0 | 3.58e-01 | 98.9% | 51.7% |
| 3743874 | 246.2.1.7 ↗ | a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › DNA_pol_E_B | 0.51 | 42.0 | 3.42e-01 | 86.7% | 64.6% |
| 5002880 | 2004.1.1.641 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF6079 | 0.51 | 45.0 | 3.62e-01 | 96.1% | 84.4% |
| 3271830 | 7590.1.1.7 ↗ | a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › MID_MedPIWI | 0.51 | 38.0 | 3.69e-01 | 77.2% | 73.7% |
| 5066133 | 2002.1.1.16 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Bac_luciferase | 0.51 | 43.0 | 3.84e-01 | 92.2% | 71.3% |
| 4373133 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.51 | 47.0 | 3.69e-01 | 100.0% | 50.7% |
| 3388141 | 2002.1.1.120 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM | 0.51 | 45.0 | 3.88e-01 | 96.1% | 71.9% |
| 4943846 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.50 | 45.0 | 3.87e-01 | 96.1% | 67.1% |
| 1721531 | 2008.1.1.45 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_AlwI | 0.50 | 41.0 | 3.84e-01 | 86.7% | 74.8% |
| 3269610 | 2484.1.1.26 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi | 0.50 | 43.0 | 3.79e-01 | 91.7% | 61.9% |
| 3195505 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.50 | 45.0 | 4.29e-01 | 97.2% | 86.7% |
| 2706000 | 2002.1.1.150 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › NAGidase | 0.50 | 45.0 | 3.41e-01 | 99.4% | 61.0% |
D2
medium
residues 181-298