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MK637516.2__QBQ72087.1__Milano_065__00066

Bact-Vir

MK637516.2__QBQ72087.1__Milano_065__00066

Identity

Accession:
MK637516 ↗
Kingdom:
phage

Quality

87.9 mean pLDDT

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 high residues 1-61
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hfkB00 1.20.120.1620 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.86 60.0 5.00e-01 72.1% 51.0%
6k6iA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.80 58.0 3.84e-01 75.4% 34.7%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.80 59.0 4.72e-01 77.0% 77.0%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.80 56.0 3.78e-01 73.8% 91.8%
2pl2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.76 58.0 3.96e-01 80.3% 31.4%
4ksaA02 1.20.140.90 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Malonyl-CoA decarboxylase, oligemerization domain 0.74 56.0 4.25e-01 80.3% 74.5%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.74 54.0 4.17e-01 78.7% 74.6%
4adyA02 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.73 61.0 3.61e-01 91.8% 41.2%
4fymF00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.73 58.0 3.98e-01 86.9% 95.2%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.72 50.0 4.50e-01 73.8% 65.9%
4aidA02 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.72 50.0 4.56e-01 73.8% 78.0%
7zm7601 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.71 59.0 4.11e-01 86.9% 32.3%
4he8D00 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.71 58.0 4.16e-01 86.9% 33.8%
8befJ01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.70 58.0 4.05e-01 86.9% 31.2%
5dllA05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.70 56.0 3.54e-01 88.5% 23.6%
6humG01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.70 58.0 4.09e-01 86.9% 33.8%
4agsA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.69 52.0 4.09e-01 82.0% 60.7%
4zvaA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.67 50.0 3.83e-01 82.0% 63.1%
3b34A05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.67 53.0 3.37e-01 88.5% 25.8%
3lcvB02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 47.0 3.25e-01 75.4% 52.0%
4r70B01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.65 46.0 3.26e-01 75.4% 73.9%
1s2xA00 1.20.190.30 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › CAG pathogenicity island protein, CagZ 0.65 48.0 3.45e-01 78.7% 68.9%
2q0oA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.64 46.0 3.36e-01 75.4% 91.7%
4o01D01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.64 45.0 3.16e-01 75.4% 72.0%
1t6sA01 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 0.63 45.0 4.05e-01 75.4% 80.2%
5cy5B00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.63 53.0 3.95e-01 93.4% 37.6%
2lhrA00 1.20.58.1270 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 44.0 4.08e-01 73.8% 69.2%
4htpB00 1.10.3260.10 Mainly Alpha › Orthogonal Bundle › DNA ligase i, domain 1 › DNA ligase, ATP-dependent, N-terminal domain 0.63 49.0 3.40e-01 86.9% 94.6%
4xeaA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.63 43.0 3.01e-01 72.1% 64.1%
2jfrA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.63 48.0 3.26e-01 83.6% 52.1%
3e98B00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.62 43.0 3.21e-01 75.4% 76.4%
4eq5A01 1.10.3260.10 Mainly Alpha › Orthogonal Bundle › DNA ligase i, domain 1 › DNA ligase, ATP-dependent, N-terminal domain 0.61 48.0 3.53e-01 88.5% 77.4%
5llyA02 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.61 44.0 3.18e-01 77.0% 96.8%
6juvB01 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 0.61 44.0 4.11e-01 75.4% 90.7%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.61 45.0 3.51e-01 83.6% 59.1%
1u1jA01 3.20.20.210 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.60 46.0 2.84e-01 85.2% 33.7%
2dg8D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 48.0 3.49e-01 88.5% 59.0%
2z99A01 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 0.59 42.0 3.78e-01 75.4% 77.0%
4y2fA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.59 42.0 3.28e-01 77.0% 88.8%
4by6D02 1.25.40.800 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.59 43.0 3.06e-01 83.6% 40.4%
6mlyB02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.58 46.0 3.03e-01 86.9% 53.7%
3iayA07 1.10.132.60 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain 0.58 40.0 3.13e-01 75.4% 84.9%
1hr6B02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.57 43.0 3.04e-01 82.0% 82.2%
1kgqA01 1.10.166.10 Mainly Alpha › Orthogonal Bundle › Tetrahydrodipicolinate-N-succinyltransferase; Chain A, domain 1 › Tetrahydrodipicolinate-N-succinyltransferase, N-terminal domain 0.56 38.0 3.70e-01 72.1% 90.0%
4akrA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.56 40.0 3.38e-01 77.0% 84.9%
1z72A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.56 49.0 3.29e-01 96.7% 56.0%
1tgoA05 1.10.132.60 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain 0.55 41.0 3.17e-01 86.9% 82.6%
7fciA01 1.20.1530.20 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › 0.55 44.0 3.01e-01 98.4% 81.4%
6qm7N00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.53 43.0 2.94e-01 88.5% 30.7%
4l3tA03 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.50 34.0 2.40e-01 72.1% 38.9%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3531615 601.48.1.0 alpha bundles › Four-helical up-and-down bundle › vWA2 C-terminal domain › vWA2 C-terminal domain 0.89 60.0 6.11e-01 80.3% 71.7%
3909630 601.48.1.0 alpha bundles › Four-helical up-and-down bundle › vWA2 C-terminal domain › vWA2 C-terminal domain 0.88 60.0 5.54e-01 80.3% 57.3%
3182549 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 59.0 3.47e-01 77.0% 11.6%
3610860 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.79 62.0 4.65e-01 83.6% 68.6%
3653336 109.4.1.152 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RPN7 0.78 61.0 4.64e-01 82.0% 43.1%
3968832 109.4.1.790 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_15 0.77 61.0 3.63e-01 83.6% 15.8%
3572303 601.1.2.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.77 58.0 4.41e-01 78.7% 70.8%
3708858 627.1.1.0 alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain 0.76 55.0 4.08e-01 77.0% 65.3%
4029372 109.4.1.528 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CBF 0.75 58.0 3.55e-01 83.6% 23.0%
3739467 109.4.1.172 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MMS19_C 0.75 61.0 4.34e-01 90.2% 68.1%
3178088 109.4.1.22 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N 0.74 56.0 3.67e-01 80.3% 31.2%
3971935 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.73 54.0 4.43e-01 78.7% 81.8%
3199268 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.73 54.0 5.11e-01 80.3% 97.3%
3441505 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 56.0 3.32e-01 82.0% 27.1%
4999453 3579.1.1.1 extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › Oxidored_q3 0.73 61.0 4.20e-01 86.9% 31.2%
3966838 109.4.1.341 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_21 0.72 61.0 4.10e-01 90.2% 44.3%
3797496 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.72 53.0 4.34e-01 77.0% 95.2%
3554259 4095.1.1.1 alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N 0.71 50.0 3.37e-01 75.4% 21.3%
3838519 3579.1.1.1 extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › Oxidored_q3 0.71 58.0 4.04e-01 86.9% 30.9%
3602308 4095.1.1.1 alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N 0.70 51.0 4.17e-01 75.4% 47.3%
4978753 7523.1.1.0 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.69 55.0 3.59e-01 86.9% 54.1%
4629067 633.24.1.5 alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain › PF29080 0.69 48.0 4.33e-01 73.8% 75.3%
3589591 601.32.1.1 alpha bundles › Four-helical up-and-down bundle › FusB family N-terminal domain › FusB family N-terminal domain › EF-G-binding_N 0.68 48.0 4.39e-01 73.8% 71.2%
3915840 109.4.1.884 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_UBP24_USP9X-Y 0.68 50.0 2.84e-01 80.3% 9.8%
4932209 3843.1.1.6 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MrpF_PhaF 0.67 55.0 4.96e-01 86.9% 75.0%
3673084 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.67 54.0 3.83e-01 88.5% 37.8%
4930533 3843.1.1.6 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MrpF_PhaF 0.66 54.0 4.90e-01 86.9% 75.0%
3719809 592.1.1.0 alpha arrays › PWI domain-like › PWI domain › PWI domain 0.66 46.0 3.93e-01 73.8% 55.0%
3336371 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 52.0 3.89e-01 86.9% 74.8%
3431383 109.4.1.1273 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3 0.65 51.0 3.08e-01 86.9% 32.8%
4109482 223.1.1.182 a+b three layers › Profilin-like › sensor domains › sensor domains › DUF3369 0.64 45.0 3.35e-01 75.4% 81.8%
1503553 3796.1.1.1 alpha arrays › Iron-regulated surface determinant protein H linker domain › Iron-regulated surface determinant protein H linker domain › Iron-regulated surface determinant protein H linker domain › Isd_H_B_linker 0.63 44.0 4.08e-01 73.8% 69.2%
4680651 223.1.1.5 a+b three layers › Profilin-like › sensor domains › sensor domains › HrcA 0.61 42.0 3.28e-01 73.8% 90.7%
3739795 223.1.1.23 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_2 0.61 43.0 3.10e-01 77.0% 78.0%
4961845 4969.1.1.1 alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B 0.60 44.0 3.33e-01 78.7% 92.7%
4091151 4004.1.1.5 beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › DAGK_acc 0.59 42.0 2.81e-01 73.8% 63.9%
3175114 109.4.1.25 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DIL 0.59 50.0 3.06e-01 96.7% 92.4%
3314223 4969.1.1.1 alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B 0.57 39.0 3.06e-01 73.8% 85.6%
3696337 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 51.0 3.14e-01 100.0% 19.7%
4959375 223.1.1.23 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_2 0.56 39.0 2.83e-01 75.4% 82.6%
3593808 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.56 39.0 3.34e-01 73.8% 93.0%
3281607 223.1.1.23 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_2 0.56 41.0 3.02e-01 83.6% 64.0%
4011233 2002.1.1.0 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.51 41.0 2.84e-01 100.0% 32.5%