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NC_054393.1__YP_010049775.1__KCH40_gp061__00106

Bact-Vir

NC_054393.1__YP_010049775.1__KCH40_gp061__00106

Identity

Accession:
NC_054393 ↗
Kingdom:
phage

Quality

80.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Typhavirus› Mycobacterium_phage_Typha

TaxID: 2517971

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 26-75
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ifeA02 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.76 66.0 4.26e-01 98.0% 38.3%
3hrdA02 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.67 45.0 3.12e-01 70.0% 72.7%
1g61A00 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.66 45.0 2.97e-01 72.0% 35.6%
1r7lA00 3.30.2120.10 Alpha Beta › 2-Layer Sandwich › Bacillus phage protein › Bacillus phage protein-like 0.66 45.0 3.65e-01 74.0% 43.7%
1x31A02 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.65 50.0 3.06e-01 94.0% 49.9%
2wtzA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.64 52.0 3.42e-01 96.0% 20.9%
2i0zA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.63 47.0 3.04e-01 84.0% 36.9%
4paaA03 3.30.1360.120 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Probable tRNA modification gtpase trme; domain 1 0.63 48.0 3.42e-01 92.0% 54.5%
2br6A01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.63 38.0 2.44e-01 78.0% 13.0%
7d27A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.61 47.0 3.18e-01 98.0% 20.4%
4at0A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.60 45.0 2.80e-01 86.0% 34.8%
1f32A02 3.30.1120.50 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Pepsin inhibitor-3 0.59 43.0 4.07e-01 78.0% 100.0%
3dc7A00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.58 46.0 3.11e-01 90.0% 44.6%
4v19K02 1.10.10.250 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain 0.57 47.0 4.20e-01 96.0% 77.3%
4zxwB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.57 46.0 3.20e-01 88.0% 62.8%
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.57 42.0 3.39e-01 80.0% 68.9%
1pvdA02 3.40.50.1220 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TPP-binding domain 0.56 40.0 2.91e-01 98.0% 24.0%
3pztB00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 49.0 3.05e-01 100.0% 32.4%
2hg7A00 3.30.56.60 Alpha Beta › 2-Layer Sandwich › Phenylalanyl-tRNA Synthetase; Chain B, domain 1 › XkdW-like 0.55 37.0 3.54e-01 70.0% 96.7%
1l6rA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.55 43.0 3.22e-01 96.0% 84.1%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 41.0 2.49e-01 84.0% 46.5%
1ss6A01 3.30.420.210 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › SEP domain 0.54 44.0 4.20e-01 100.0% 95.4%
4q7qB00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.53 47.0 2.96e-01 98.0% 23.0%
1ep3A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.53 39.0 2.51e-01 86.0% 79.7%
5agaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 41.0 2.86e-01 96.0% 93.9%
7ecrA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 42.0 2.99e-01 100.0% 56.8%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.50 40.0 2.62e-01 92.0% 36.9%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4255411 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.73 63.0 4.90e-01 98.0% 58.2%
4051690 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.71 61.0 4.83e-01 98.0% 59.0%
5033675 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.65 47.0 2.80e-01 78.0% 76.9%
4478659 3435.1.1.3 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-L 0.64 44.0 2.73e-01 70.0% 47.0%
5056285 2003.1.2.40 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_oxidored 0.64 47.0 2.82e-01 80.0% 75.3%
4976291 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.64 46.0 2.75e-01 78.0% 81.6%
3679617 224.1.1.0 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like 0.63 49.0 3.90e-01 82.0% 52.6%
2524005 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.63 46.0 3.31e-01 84.0% 30.5%
3954904 2003.1.2.7 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2 0.62 47.0 2.86e-01 84.0% 93.1%
3676460 7555.1.1.1 ↗ a/b three-layered sandwiches › Alpha-2,3/8-sialyltransferase CstII-related › Alpha-2,3/8-sialyltransferase CstII-related › Alpha-2,3/8-sialyltransferase CstII-related › Glyco_transf_29 0.61 52.0 3.27e-01 100.0% 53.7%
5067018 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.61 45.0 2.71e-01 80.0% 74.1%
5027727 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.60 45.0 2.73e-01 82.0% 77.6%
5034033 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.60 51.0 3.13e-01 96.0% 72.4%
5074448 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.60 47.0 2.80e-01 86.0% 77.5%
3972982 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.59 45.0 2.95e-01 84.0% 98.0%
4545531 220.1.1.255 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_10 0.58 47.0 4.18e-01 98.0% 63.7%
5033556 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.58 49.0 3.67e-01 100.0% 45.7%
5058752 2003.1.2.29 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NAD_binding_8 0.58 45.0 2.65e-01 84.0% 70.3%
5007065 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.57 47.0 3.59e-01 96.0% 90.0%
4945655 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 46.0 3.75e-01 98.0% 52.0%
4972455 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.54 41.0 2.50e-01 86.0% 39.0%
4989141 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.54 40.0 2.56e-01 84.0% 21.7%
3294962 2003.1.4.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › DHS-like NAD/FAD-binding domain 0.54 36.0 2.81e-01 74.0% 44.0%
3701322 7514.1.1.1 ↗ a/b three-layered sandwiches › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › Ferredoxin reductase-like, C-terminal NADP-linked domain › NAD_binding_1 0.54 42.0 3.07e-01 100.0% 84.9%
5052071 7528.1.1.0 ↗ a/b three-layered sandwiches › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains › Phosphoglucomutase, first 3 domains 0.53 40.0 2.97e-01 92.0% 44.7%
4940843 2003.1.2.29 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NAD_binding_8 0.53 46.0 2.72e-01 98.0% 66.8%
4527022 2003.1.2.16 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.53 46.0 2.75e-01 100.0% 74.8%
3717645 831.1.1.1 ↗ a+b two layers › NSFL1 (p97 ATPase) cofactor p47, SEP domain › NSFL1 (p97 ATPase) cofactor p47, SEP domain › NSFL1 (p97 ATPase) cofactor p47, SEP domain › SEP 0.53 43.0 3.73e-01 100.0% 68.9%
4948800 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.53 39.0 2.44e-01 84.0% 69.7%
1138111 2003.1.2.49 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2+FAD_binding_3 0.51 41.0 3.00e-01 96.0% 91.0%
4938705 2003.1.2.40 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_oxidored 0.51 43.0 3.08e-01 96.0% 81.9%
5048832 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 44.0 3.38e-01 100.0% 41.7%
4332395 2003.1.2.20 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › HI0933_like 0.50 43.0 2.85e-01 100.0% 68.6%