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MN586042.1__QGJ95234.1__PBI_JAYDEN_14__00014

Bact-Vir

MN586042.1__QGJ95234.1__PBI_JAYDEN_14__00014

Identity

Accession:
MN586042 ↗
Kingdom:
phage

Quality

68.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Hodgkinviridae› Metamorphoovirus› Microbacterium_phage_Jayden

TaxID: 2656550

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 9-46
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.69 47.0 4.16e-01 71.1% 55.4%
2fgeA01 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.64 45.0 2.69e-01 100.0% 11.2%
4n4nB00 3.90.640.100 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.62 40.0 3.48e-01 100.0% 44.6%
3aafA00 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 49.0 3.65e-01 94.7% 39.4%
2iz4A02 2.20.25.590 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.60 41.0 4.07e-01 71.1% 59.5%
2yrvA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.60 41.0 2.95e-01 71.1% 81.4%
1xhhA00 2.60.40.1900 Mainly Beta › Sandwich › Immunoglobulin-like › Beta-microseminoprotein (PSP94) domain 0.59 40.0 3.11e-01 71.1% 27.5%
1fi8C00 2.60.40.550 Mainly Beta › Sandwich › Immunoglobulin-like › Ecotin 0.58 43.0 3.55e-01 86.8% 51.3%
1x9mA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 47.0 3.04e-01 100.0% 98.7%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 44.0 3.27e-01 86.8% 82.1%
7sk7A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.57 42.0 2.65e-01 86.8% 33.6%
3zcoA00 1.10.10.2450 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.57 43.0 3.22e-01 97.4% 29.9%
1mhyD00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.57 43.0 2.43e-01 86.8% 7.8%
2gmhA03 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 3.41e-01 94.7% 62.5%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.57 39.0 3.18e-01 76.3% 90.2%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.57 38.0 3.12e-01 78.9% 32.9%
5r0dB01 2.60.34.20 Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › 0.56 42.0 2.92e-01 81.6% 32.9%
8bveA03 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.55 39.0 3.24e-01 84.2% 38.9%
4gyiA01 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 0.55 40.0 3.36e-01 100.0% 46.2%
2ebnA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.55 40.0 2.47e-01 86.8% 86.3%
1t0fA01 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.54 40.0 2.76e-01 86.8% 35.2%
7sbeA01 1.10.132.70 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.54 38.0 2.53e-01 84.2% 63.7%
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 0.54 39.0 3.07e-01 78.9% 74.4%
3bpvA00 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 39.0 2.97e-01 97.4% 29.9%
3o8oF01 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 46.0 2.86e-01 100.0% 78.2%
1k8kA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.54 39.0 3.04e-01 78.9% 32.6%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 42.0 2.86e-01 94.7% 61.3%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.53 38.0 2.33e-01 76.3% 12.5%
6l3tA01 1.20.1440.80 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Gap junction channel protein cysteine-rich domain 0.53 41.0 2.66e-01 84.2% 32.7%
4s1hA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.53 44.0 2.61e-01 94.7% 75.6%
2xocA01 3.30.40.140 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.53 38.0 3.11e-01 78.9% 55.1%
1zcdA00 1.20.1530.10 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain 0.52 42.0 2.51e-01 100.0% 82.7%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 40.0 3.00e-01 86.8% 59.6%
4arvA02 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.52 43.0 3.10e-01 100.0% 55.6%
3ossD00 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.52 47.0 3.04e-01 100.0% 68.8%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.52 42.0 2.42e-01 97.4% 63.6%
1zoyA04 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.52 37.0 3.23e-01 92.1% 46.2%
2v3uA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.52 45.0 3.02e-01 100.0% 27.9%
5w5yB08 3.90.1800.10 Alpha Beta › Alpha-Beta Complex › DCoH-like › RNA polymerase alpha subunit dimerisation domain 0.52 41.0 2.88e-01 94.7% 59.7%
3weeB03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.51 35.0 2.61e-01 71.1% 30.4%
3llcA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 44.0 2.68e-01 100.0% 18.4%
2y3mA02 3.30.1370.130 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.51 38.0 3.35e-01 86.8% 55.4%
1vq0A02 3.90.1280.10 Alpha Beta › Alpha-Beta Complex › CBS domain Like › HSP33 redox switch-like 0.51 40.0 3.48e-01 86.8% 64.9%
4g1uD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 34.0 2.17e-01 71.1% 86.8%
4xr7F02 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 41.0 3.08e-01 89.5% 81.1%
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 41.0 2.79e-01 94.7% 25.6%
2kqrA01 3.30.1910.20 Alpha Beta › 2-Layer Sandwich › so0334 like fold › asparaginyl-tRNA synthetase, N-terminal domain 0.50 35.0 3.16e-01 92.1% 97.3%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3706365 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.83 59.0 5.40e-01 76.3% 58.0%
5050302 205.1.1.0 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.71 59.0 4.66e-01 94.7% 46.3%
3280900 2004.1.1.192 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_18 0.70 57.0 3.94e-01 100.0% 38.0%
4465307 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.70 47.0 4.36e-01 71.1% 54.0%
2321841 1016.1.1.1 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Pan3_PK 0.70 40.0 2.63e-01 100.0% 13.4%
4004145 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.69 42.0 2.56e-01 100.0% 10.7%
5058374 7513.1.1.1 ↗ a/b three-layered sandwiches › CofD-like › CofD-like › CofD-like › CofD 0.66 54.0 3.11e-01 100.0% 15.2%
3424116 4.1.1.12 ↗ beta barrels › SH3 › SH3 › SH3 › PWWP 0.64 42.0 3.01e-01 71.1% 20.8%
4016050 2490.2.1.1 ↗ a/b three-layered sandwiches › Ribosomal protein L13/L15p/L18e/L32e › Ribosomal protein L13 and L16-A › Ribosomal protein L13 and L16-A › Ribosomal_L13 0.64 44.0 2.82e-01 100.0% 15.2%
3393502 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.63 48.0 3.63e-01 84.2% 33.7%
3482807 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.60 41.0 2.95e-01 100.0% 25.9%
3283208 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.59 44.0 2.95e-01 84.2% 42.9%
3932471 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.59 42.0 2.59e-01 92.1% 10.6%
3593736 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.59 46.0 3.42e-01 86.8% 44.0%
5041606 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.59 42.0 3.65e-01 78.9% 56.9%
3659885 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.58 40.0 2.99e-01 78.9% 29.5%
3969115 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.58 38.0 2.83e-01 71.1% 22.9%
3275475 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.57 47.0 2.91e-01 94.7% 28.7%
4366971 4203.1.1.1 ↗ few secondary structure elements › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 0.57 39.0 3.49e-01 73.7% 49.1%
3712081 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.57 45.0 3.27e-01 89.5% 53.6%
3738283 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.57 48.0 2.74e-01 100.0% 37.4%
4083451 192.2.1.20 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ASNSD1-SEP 0.57 45.0 3.57e-01 89.5% 77.5%
3320639 314.1.1.0 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.56 48.0 3.05e-01 100.0% 68.2%
2675169 2490.2.1.1 ↗ a/b three-layered sandwiches › Ribosomal protein L13/L15p/L18e/L32e › Ribosomal protein L13 and L16-A › Ribosomal protein L13 and L16-A › Ribosomal_L13 0.55 46.0 2.96e-01 100.0% 24.4%
4191047 2484.1.1.245 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA, PilM_2, FtsA 0.55 44.0 2.54e-01 92.1% 76.4%
4178991 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.55 36.0 2.03e-01 97.4% 4.5%
4032204 2484.1.1.178 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.54 39.0 2.39e-01 97.4% 52.5%
3739321 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.54 42.0 2.88e-01 100.0% 23.5%
3948516 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.54 38.0 3.26e-01 73.7% 43.1%
3729675 5050.1.1.2 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › PTR2 0.53 43.0 2.42e-01 100.0% 82.7%
2701125 3146.1.1.1 ↗ a+b complex topology › gH main domain › gH main domain › gH main domain › Herpes_glycop_H 0.53 41.0 2.32e-01 86.8% 8.2%
4148130 4203.1.1.1 ↗ few secondary structure elements › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 0.53 37.0 3.36e-01 73.7% 60.0%
3661784 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.53 42.0 2.55e-01 100.0% 34.2%
4017372 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.52 40.0 2.91e-01 84.2% 55.7%
3440114 2007.1.13.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Lumazine synthase › DUF3326 0.51 44.0 2.89e-01 100.0% 61.7%
3964249 4203.1.1.1 ↗ few secondary structure elements › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 0.51 38.0 3.36e-01 78.9% 61.7%
4962256 101.1.2.937 ↗ alpha arrays › HTH › HTH › winged helix domain › PF25943 0.51 44.0 3.15e-01 97.4% 60.0%
4234747 4203.1.1.1 ↗ few secondary structure elements › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 redox switch-like › HSP33 0.50 36.0 3.20e-01 76.3% 58.6%
4024861 2003.1.5.82 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.50 42.0 2.57e-01 97.4% 54.2%