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NC_055759.1__YP_010097500.1__KNU03_gp010__00010

Bact-Vir

NC_055759.1__YP_010097500.1__KNU03_gp010__00010

Identity

Accession:
NC_055759 ↗
Kingdom:
phage

Quality

70.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Corndogvirus› Mycobacterium_phage_Ryadel

TaxID: 2283292

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 36-90
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3en9A03 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.78 41.0 3.70e-01 100.0% 37.0%
4e4tA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.70 62.0 4.20e-01 100.0% 83.7%
3hrgA02 3.30.420.260 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, C-terminal domain 0.67 52.0 4.17e-01 100.0% 42.1%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 54.0 4.24e-01 100.0% 42.7%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.66 57.0 5.28e-01 98.2% 78.9%
2f51A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.63 54.0 4.32e-01 98.2% 79.3%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 52.0 4.84e-01 100.0% 74.6%
2fjlA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 51.0 3.81e-01 100.0% 34.7%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.61 46.0 4.20e-01 98.2% 58.7%
5ff5A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.60 54.0 3.50e-01 100.0% 27.0%
1ntyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 48.0 3.78e-01 100.0% 40.3%
2kouA00 3.30.160.380 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Dicer dimerisation domain 0.60 50.0 4.17e-01 100.0% 52.0%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 50.0 3.89e-01 100.0% 41.7%
7vyjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 50.0 3.55e-01 100.0% 76.9%
3cxgA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 49.0 3.87e-01 98.2% 72.1%
3ulbA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 47.0 4.12e-01 100.0% 60.2%
1vwxr00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.57 47.0 3.74e-01 100.0% 44.0%
4nehA01 2.130.10.130 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Integrin alpha, N-terminal 0.57 46.0 2.86e-01 98.2% 22.8%
3d22A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 45.0 3.60e-01 100.0% 69.8%
2ljuA01 3.30.160.190 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › atu1810 like domain 0.55 46.0 4.16e-01 92.7% 92.0%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 46.0 3.75e-01 100.0% 80.0%
2i00A02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 44.0 3.22e-01 90.9% 59.1%
3obqA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.54 43.0 3.40e-01 98.2% 50.4%
4khbC00 2.30.29.210 Mainly Beta › Roll › PH-domain like › FACT complex subunit Spt16p/Cdc68p 0.54 45.0 3.78e-01 100.0% 55.7%
3h1qA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 45.0 3.67e-01 100.0% 70.4%
2cu2A00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.53 46.0 2.87e-01 100.0% 29.3%
2k6vA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 41.0 3.05e-01 98.2% 79.7%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.50 41.0 3.62e-01 87.3% 61.5%
5i47B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.50 37.0 3.19e-01 81.8% 72.6%
2giaB00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.50 39.0 3.04e-01 90.9% 69.9%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4955671 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.76 68.0 5.93e-01 100.0% 66.3%
3943930 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.76 61.0 6.42e-01 96.4% 96.0%
3278704 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.74 64.0 5.69e-01 100.0% 67.5%
5027968 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.71 65.0 5.01e-01 100.0% 81.7%
4444614 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.67 58.0 5.21e-01 100.0% 76.2%
4009844 7503.1.1.18 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › PF30449 0.67 58.0 4.44e-01 100.0% 43.1%
3712991 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.67 56.0 4.95e-01 100.0% 63.5%
119245 252.3.1.1 ↗ a+b two layers › DNA-binding domain › Uncharacterized protein yaiA › Uncharacterized protein yaiA › YaiA 0.66 57.0 5.28e-01 98.2% 78.9%
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 0.66 56.0 4.95e-01 100.0% 64.7%
4889666 11.2.1.117 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PI-PLC-Y 0.66 54.0 4.24e-01 100.0% 43.2%
3258452 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.65 56.0 4.43e-01 100.0% 56.7%
3495949 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.65 54.0 4.71e-01 100.0% 58.9%
4945290 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.64 53.0 5.24e-01 100.0% 96.7%
5042040 868.1.1.1 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.64 44.0 3.14e-01 72.7% 89.4%
3512452 223.1.1.23 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_2 0.64 55.0 4.42e-01 100.0% 55.7%
3479701 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 52.0 4.17e-01 100.0% 43.5%
3592742 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.64 55.0 4.77e-01 100.0% 73.3%
5038844 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.64 55.0 4.91e-01 100.0% 77.5%
3281018 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.64 56.0 4.62e-01 100.0% 57.0%
3670605 330.1.1.3 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Dicer_dimer 0.64 53.0 4.54e-01 98.2% 56.7%
3983036 2484.1.1.119 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS1 0.63 53.0 5.12e-01 100.0% 84.6%
3702613 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 49.0 5.10e-01 87.3% 100.0%
3444419 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 54.0 4.53e-01 100.0% 72.0%
3477246 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.63 52.0 3.98e-01 100.0% 38.6%
3660311 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.62 53.0 4.75e-01 98.2% 66.3%
3277493 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.62 51.0 4.18e-01 98.2% 48.2%
4948799 281.1.1.0 ↗ a+b three layers › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase › AraD-like aldolase/epimerase 0.62 50.0 3.71e-01 92.7% 81.3%
3750853 330.1.1.18 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_DHX29 0.62 54.0 4.15e-01 98.2% 43.3%
3508680 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.62 51.0 4.20e-01 100.0% 48.6%
5029914 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.61 49.0 5.00e-01 94.5% 100.0%
5027780 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.60 49.0 4.84e-01 96.4% 96.7%
4582465 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.59 51.0 4.15e-01 100.0% 52.7%
3743988 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.59 48.0 3.80e-01 100.0% 41.6%
3864513 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 50.0 3.97e-01 100.0% 44.0%
3470912 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.59 51.0 4.04e-01 100.0% 47.5%
3172487 220.1.1.57 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_20 0.58 50.0 3.71e-01 100.0% 38.1%
3452440 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 48.0 3.90e-01 100.0% 46.1%
3443786 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 52.0 4.72e-01 100.0% 73.3%
4937559 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.58 48.0 4.23e-01 100.0% 63.3%
3992484 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 50.0 3.94e-01 100.0% 68.3%
4087213 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.57 46.0 4.28e-01 100.0% 70.7%
3999570 220.1.1.5 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PID 0.57 47.0 3.82e-01 100.0% 48.6%
3250882 220.1.1.199 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_NISCH_C 0.56 46.0 3.51e-01 100.0% 36.1%
3492666 220.1.1.151 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_MRCK 0.56 49.0 4.44e-01 100.0% 77.3%
3720549 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.56 37.0 4.08e-01 76.4% 95.0%
3780836 5.1.4.257 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › FG-GAP, FG-GAP_3 0.55 45.0 2.75e-01 98.2% 20.5%
4971291 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.55 42.0 3.20e-01 83.6% 90.4%
4039156 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.55 44.0 3.73e-01 100.0% 67.3%
5071931 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.54 39.0 2.90e-01 80.0% 38.1%
4974068 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.53 41.0 3.01e-01 83.6% 80.7%
3636379 220.1.1.203 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_23 0.53 43.0 3.22e-01 94.5% 45.2%
3597921 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 38.0 3.12e-01 83.6% 78.3%
4397552 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.51 42.0 3.35e-01 98.2% 47.2%
357202 896.1.1.2 ↗ 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 › SRP14 0.50 39.0 3.60e-01 100.0% 63.4%
3860233 2.1.1.37 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › OB_NTP_bind 0.50 35.0 3.20e-01 74.5% 82.1%
3394537 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.42e-01 100.0% 48.2%