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NC_053514.1__YP_010013766.1__J4U03_gp011__00011

Bact-Vir

NC_053514.1__YP_010013766.1__J4U03_gp011__00011

Identity

Accession:
NC_053514 ↗
Kingdom:
phage

Quality

83.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vilmaviridae› Reyvirus› Mycobacterium_phage_Estes

TaxID: 2759459

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 12-85
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4kwyA00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.73 68.0 5.42e-01 100.0% 60.6%
5nckA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.73 51.0 4.53e-01 85.1% 51.4%
3p9xA00 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.70 63.0 4.63e-01 100.0% 43.6%
3da8B00 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.70 60.0 4.34e-01 94.6% 39.5%
4iqfB01 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.70 61.0 4.35e-01 94.6% 39.4%
1c9rA04 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.69 51.0 4.58e-01 86.5% 55.1%
1wr2A01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.69 49.0 3.81e-01 83.8% 35.0%
5vyqA01 3.40.50.170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain 0.68 57.0 4.32e-01 93.2% 45.2%
4o01D01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.67 55.0 4.05e-01 93.2% 38.6%
4bwiB01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.67 57.0 4.33e-01 100.0% 53.1%
4nspA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.67 55.0 3.82e-01 91.9% 27.7%
3hcyA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.66 57.0 4.67e-01 98.6% 60.0%
7kx7A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.66 50.0 3.60e-01 90.5% 27.9%
2k4vA00 3.30.160.370 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Domain of unknown function DUF5064 0.65 46.0 3.92e-01 85.1% 44.0%
1nbwA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 48.0 4.01e-01 86.5% 44.7%
3gd6A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.65 53.0 4.38e-01 93.2% 77.5%
6ksrA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 50.0 3.92e-01 86.5% 43.1%
2mdrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.63 47.0 4.44e-01 98.6% 64.9%
4gw9A01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.63 52.0 3.78e-01 93.2% 47.9%
3ly7A01 3.40.50.11830 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.62 47.0 3.72e-01 86.5% 37.9%
4a2bA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 49.0 4.01e-01 86.5% 46.4%
1sz2B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 41.0 3.57e-01 79.7% 42.5%
7pikC01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 49.0 3.57e-01 91.9% 97.6%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 50.0 4.22e-01 93.2% 90.6%
1jyaB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.58 48.0 4.14e-01 91.9% 74.4%
1hjrA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 42.0 3.28e-01 86.5% 35.4%
4ikbA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.58 45.0 3.72e-01 94.6% 47.3%
2kx2A00 3.30.780.30 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › 0.58 47.0 4.36e-01 91.9% 94.8%
3f6gA02 3.30.160.340 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 43.0 4.62e-01 86.5% 96.8%
1jkmA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 45.0 2.93e-01 87.8% 77.4%
2obdA02 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.57 52.0 3.80e-01 100.0% 65.1%
4hkqA04 3.10.20.370 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 44.0 4.38e-01 89.2% 84.2%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 50.0 3.86e-01 100.0% 52.8%
3wxmB02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.55 41.0 3.51e-01 91.9% 49.2%
4le5B03 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.54 41.0 3.51e-01 85.1% 71.1%
2mnjB00 2.60.40.4160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 32.0 3.08e-01 93.2% 46.6%
5aa5E00 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.53 46.0 2.78e-01 100.0% 63.3%
4gm6A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.53 39.0 2.67e-01 87.8% 19.1%
6rk7E03 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.53 41.0 3.46e-01 87.8% 68.4%
5n1tA03 3.90.760.10 Alpha Beta › Alpha-Beta Complex › Flavocytochrome C Sulfide Dehydrogenase; Chain A Domain 3 › Flavocytochrome c sulphide dehydrogenase, flavin-binding domain 0.52 40.0 4.08e-01 95.9% 84.5%
2zshA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 44.0 2.87e-01 94.6% 21.0%
2kzxA00 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.52 39.0 3.30e-01 82.4% 97.7%
1zarA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 39.0 3.87e-01 89.2% 75.3%
3seeA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 41.0 2.94e-01 86.5% 88.8%
2vzsA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 38.0 3.54e-01 85.1% 86.1%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4106254 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.76 52.0 4.35e-01 86.5% 42.4%
3588441 2484.1.1.194 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve, rve_3 0.75 52.0 4.02e-01 90.5% 32.7%
4142588 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.75 55.0 4.05e-01 86.5% 30.8%
3589548 11.1.4.36 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › SpaA 0.74 53.0 4.21e-01 90.5% 38.6%
3962721 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.73 52.0 4.47e-01 86.5% 47.5%
3953212 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.72 50.0 4.11e-01 79.7% 40.0%
3676186 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.71 51.0 4.88e-01 81.1% 65.9%
3679236 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.71 51.0 3.14e-01 81.1% 13.3%
4600693 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.70 53.0 4.40e-01 79.7% 100.0%
5031204 206.1.3.26 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › ATP-grasp_5 0.69 49.0 3.41e-01 85.1% 22.9%
4956532 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.69 50.0 3.80e-01 85.1% 32.2%
4438376 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.69 52.0 4.37e-01 79.7% 99.2%
4010765 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.68 49.0 4.09e-01 75.7% 100.0%
5053046 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.67 51.0 3.79e-01 85.1% 32.4%
5024957 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.67 52.0 5.14e-01 85.1% 83.5%
3672774 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.66 55.0 4.22e-01 91.9% 40.0%
3930408 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.66 51.0 5.06e-01 86.5% 78.8%
4014324 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 51.0 3.77e-01 86.5% 33.7%
3187356 2484.1.1.223 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27036 0.64 51.0 3.78e-01 86.5% 33.7%
5018480 1104.1.1.0 ↗ a+b complex topology › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain 0.63 45.0 3.40e-01 75.7% 46.1%
3443030 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 49.0 4.80e-01 86.5% 78.8%
4151184 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.62 52.0 3.95e-01 98.6% 37.4%
3592742 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.62 42.0 3.97e-01 86.5% 57.8%
4444614 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.62 48.0 4.77e-01 94.6% 80.0%
3658323 284.1.2.1 ↗ a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases › OSR1_C 0.61 44.0 3.99e-01 79.7% 55.2%
4954572 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.59 43.0 3.71e-01 85.1% 47.5%
3439646 284.1.3.2 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C 0.59 42.0 3.85e-01 81.1% 54.3%
4397552 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.59 42.0 3.58e-01 83.8% 44.8%
4256745 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.59 45.0 3.74e-01 81.1% 68.5%
3744271 3662.1.1.3 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC4 0.59 43.0 3.69e-01 78.4% 62.5%
3451695 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 45.0 4.31e-01 90.5% 70.0%
3255424 5.1.3.19 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Hira 0.58 44.0 3.41e-01 81.1% 41.8%
3400787 5.1.4.408 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › EMC1_C 0.58 51.0 3.09e-01 98.6% 14.8%
4505784 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.58 43.0 3.70e-01 90.5% 49.2%
3672898 295.1.1.3 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.58 43.0 3.68e-01 81.1% 80.8%
3437883 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 46.0 4.45e-01 90.5% 77.6%
4543638 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.57 43.0 3.28e-01 94.6% 35.8%
4401923 2484.1.1.60 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_E_G 0.57 41.0 3.57e-01 79.7% 48.3%
3987365 896.1.1.4 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › DDE_Tnp_IS66 0.57 40.0 3.91e-01 79.7% 68.8%
4948698 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.57 44.0 3.77e-01 94.6% 53.0%
5055184 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.56 38.0 3.67e-01 70.3% 62.4%
4938125 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.56 44.0 4.23e-01 91.9% 74.1%
4929084 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 43.0 2.72e-01 83.8% 23.3%
3744637 216.1.1.4 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › RWD 0.56 47.0 3.66e-01 98.6% 41.8%
3739683 220.1.1.20 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TFIIH 0.55 48.0 4.19e-01 94.6% 91.8%
5022810 2484.4.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like › Nitro_FeMo-Co 0.55 40.0 3.61e-01 79.7% 55.0%
3270076 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.54 48.0 3.24e-01 97.3% 32.3%
3444419 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 46.0 4.19e-01 95.9% 70.0%
3669022 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.54 39.0 3.61e-01 89.2% 60.0%
4011588 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.53 41.0 4.09e-01 90.5% 86.7%
3251163 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.53 48.0 4.48e-01 100.0% 94.4%
3220940 2.1.1.28 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › mRNA_cap_C 0.52 46.0 3.85e-01 97.3% 72.0%
3669367 2484.1.1.165 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 41.0 2.62e-01 83.8% 31.3%
3639482 220.1.1.211 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7612 0.51 36.0 3.00e-01 74.3% 59.3%
3266017 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 39.0 2.69e-01 87.8% 25.5%
5080369 244.3.1.4 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › Lip_prot_lig_C 0.50 36.0 3.35e-01 75.7% 62.1%
4929294 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.50 44.0 3.38e-01 100.0% 94.4%
4928329 327.17.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › S-adenosylmethionine synthetase › S-adenosylmethionine synthetase › S-AdoMet_synt_N 0.50 39.0 2.65e-01 83.8% 68.9%