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MN234234.1__QFG14857.1__SEA_LYMARA_56__00056

Bact-Vir

MN234234.1__QFG14857.1__SEA_LYMARA_56__00056

Identity

Accession:
MN234234 ↗
Kingdom:
phage

Quality

86.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Klausavirus› Arthrobacter_phage_Lymara

TaxID: 2599828

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 2-52
PDB
Domain cluster: representative
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1lgpA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.71 61.0 4.79e-01 100.0% 55.8%
2de6A02 2.20.25.680 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.69 46.0 4.40e-01 94.1% 60.3%
4xpmB00 3.40.1840.10 Alpha Beta › 3-Layer(aba) Sandwich › Profilin-like › YNR034W-A-like 0.68 45.0 4.13e-01 100.0% 52.2%
2zylA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.66 46.0 3.43e-01 96.1% 28.1%
1e88A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.66 45.0 4.81e-01 98.0% 90.5%
7b9cA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.66 53.0 3.25e-01 96.1% 33.0%
2jo6A00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.64 45.0 3.59e-01 98.0% 35.5%
7ne4A01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.63 45.0 2.83e-01 80.4% 30.1%
2giaB00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.62 50.0 3.65e-01 92.2% 55.5%
1h54A03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.61 52.0 4.61e-01 100.0% 66.2%
3wirA03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.61 52.0 4.74e-01 100.0% 72.5%
2fblB00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.61 48.0 3.46e-01 86.3% 42.6%
2v8qB00 6.20.250.60 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.61 50.0 4.48e-01 100.0% 65.8%
3ms6A00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.61 47.0 3.97e-01 100.0% 48.9%
1o9aA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 42.0 4.44e-01 98.0% 88.6%
1vr8A00 3.40.1000.20 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › TM1622-like 0.60 47.0 3.49e-01 100.0% 33.3%
6w0pA02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.59 48.0 2.86e-01 100.0% 11.1%
1llnA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.58 46.0 3.36e-01 98.0% 81.7%
1p32B00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.58 47.0 3.32e-01 100.0% 27.5%
2bf1A00 2.170.40.20 Mainly Beta › Beta Complex › HIV Envelope Protein Gp120; Chain G › Human immunodeficiency virus 1, Gp160, envelope glycoprotein 0.58 44.0 2.80e-01 86.3% 67.4%
3ecqA01 2.60.120.870 Mainly Beta › Sandwich › Jelly Rolls › 0.58 41.0 2.92e-01 78.4% 44.8%
3nhqA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.57 47.0 3.62e-01 94.1% 45.4%
1vyfA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 48.0 3.62e-01 100.0% 58.5%
4ktpA01 2.70.98.40 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Glycoside hydrolase, family 65, N-terminal domain 0.56 48.0 3.10e-01 100.0% 42.8%
1cbiA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 46.0 3.52e-01 100.0% 73.5%
1a57A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 44.0 3.55e-01 98.0% 62.9%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 39.0 3.64e-01 98.0% 59.1%
1lp8A01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.55 43.0 3.14e-01 98.0% 83.4%
1plqA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.55 43.0 2.82e-01 90.2% 45.7%
4u6bA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 43.0 2.66e-01 90.2% 81.6%
7obmA01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.54 45.0 2.83e-01 100.0% 24.0%
3gceA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.53 46.0 3.67e-01 100.0% 95.2%
1z01A02 2.20.25.680 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.52 45.0 4.33e-01 98.0% 85.2%
4h0aA00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.52 44.0 2.78e-01 98.0% 21.2%
1h8mA00 3.30.450.50 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin domain 0.51 44.0 3.27e-01 100.0% 52.1%
1v6zA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.51 42.0 3.99e-01 98.0% 80.0%
1p6pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 44.0 3.36e-01 100.0% 57.6%
2qmiA02 2.40.128.210 Mainly Beta › Beta Barrel › Lipocalin › Pab87 octamerisation domain 0.51 40.0 3.39e-01 94.1% 61.0%
4azpA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 40.0 3.16e-01 100.0% 38.8%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3590871 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.81 56.0 3.48e-01 100.0% 14.2%
4947581 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.76 50.0 3.89e-01 100.0% 31.8%
2858693 66.1.1.0 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain 0.72 48.0 4.90e-01 92.2% 71.4%
5050853 2004.1.1.16 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.70 50.0 3.15e-01 100.0% 14.2%
3650304 66.1.1.0 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain 0.69 48.0 4.60e-01 96.1% 63.3%
222713 391.1.1.1 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › fn1 0.68 49.0 5.13e-01 100.0% 88.9%
3486144 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.68 55.0 3.42e-01 92.2% 45.4%
4028603 5.1.4.402 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PF30552 0.68 55.0 3.26e-01 94.1% 32.6%
3513418 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.68 52.0 5.49e-01 92.2% 97.8%
3936758 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.67 49.0 4.52e-01 94.1% 61.5%
3643893 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.67 47.0 4.15e-01 98.0% 48.8%
3592221 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 45.0 3.42e-01 70.6% 54.2%
3196528 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.65 51.0 4.91e-01 100.0% 75.0%
1014 66.1.1.2 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske_2 0.64 45.0 4.77e-01 98.0% 86.7%
4457771 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.64 45.0 4.02e-01 98.0% 52.0%
None — 0.63 49.0 3.09e-01 88.2% 41.9%
5003276 331.1.1.5 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › OGG_N 0.63 51.0 4.66e-01 100.0% 67.7%
5061635 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 47.0 2.74e-01 100.0% 8.3%
3992247 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.61 50.0 4.37e-01 98.0% 60.0%
3656396 219.1.1.16 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C48 0.61 54.0 3.75e-01 100.0% 39.4%
3708710 5.1.4.169 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RSE1_2nd 0.61 46.0 2.57e-01 82.4% 28.0%
3427602 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.61 51.0 3.14e-01 94.1% 69.8%
4008035 223.1.1.112 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PF30417 0.60 47.0 2.93e-01 100.0% 16.0%
3998167 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.60 46.0 3.08e-01 92.2% 48.8%
3476979 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.59 52.0 4.14e-01 100.0% 57.3%
3704604 4086.1.1.1 ↗ a+b two layers › AMPKBI-like › AMPKBI-like › AMPKBI-like › AMPKBI 0.59 52.0 4.17e-01 100.0% 71.0%
3480221 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.59 51.0 4.77e-01 100.0% 90.8%
3226032 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.58 49.0 4.89e-01 98.0% 94.3%
3598882 4086.1.1.0 ↗ a+b two layers › AMPKBI-like › AMPKBI-like › AMPKBI-like 0.58 51.0 4.41e-01 100.0% 65.0%
3387446 7579.1.1.60 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF2920 0.58 49.0 2.95e-01 100.0% 49.6%
4044986 391.1.2.3 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › SVWC 0.56 49.0 4.33e-01 100.0% 84.0%
3250134 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.56 46.0 3.67e-01 100.0% 58.3%
3708068 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 47.0 3.02e-01 98.0% 37.6%
4523246 391.1.2.3 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › SVWC 0.55 46.0 4.34e-01 100.0% 96.9%
3211840 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.54 41.0 3.14e-01 98.0% 32.1%
4926892 220.1.1.87 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_3 0.54 48.0 3.70e-01 100.0% 53.9%
3510850 3459.1.1.0 ↗ beta sandwiches › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule 0.53 43.0 3.76e-01 100.0% 57.8%
3567966 9.1.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.53 43.0 3.66e-01 98.0% 52.6%
3597091 227.1.1.12 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad9 0.52 41.0 3.20e-01 90.2% 92.7%
3694428 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.52 44.0 2.61e-01 98.0% 37.4%
5065208 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.50 42.0 4.19e-01 98.0% 100.0%