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NC_048674.1__YP_009834777.1__HWB29_gp075__00075

Bact-Vir

NC_048674.1__YP_009834777.1__HWB29_gp075__00075

Identity

Accession:
NC_048674 ↗
Kingdom:
phage

Quality

90.7 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 4-90
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3mahA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.78 46.0 5.06e-01 79.3% 72.9%
2f8xC03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 41.0 4.05e-01 81.6% 55.3%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.64 38.0 3.57e-01 100.0% 50.0%
1nvmB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.63 56.0 4.65e-01 100.0% 93.5%
2b4vA03 3.30.70.1970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 49.0 4.70e-01 93.1% 73.7%
2raqA01 3.30.70.1340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › MTH889-like domain 0.62 45.0 4.54e-01 92.0% 77.6%
1uv7A00 3.30.1360.100 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › General secretion pathway protein M, EpsM 0.62 48.0 5.13e-01 97.7% 97.4%
2w7vA00 3.30.1360.100 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › General secretion pathway protein M, EpsM 0.61 50.0 5.12e-01 100.0% 92.7%
1b3tA00 3.30.70.390 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Epstein Barr virus nuclear antigen-1, DNA-binding domain 0.60 49.0 4.10e-01 88.5% 57.1%
5hl8C00 3.30.1360.100 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › General secretion pathway protein M, EpsM 0.60 48.0 5.07e-01 100.0% 96.2%
3ahpA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 48.0 4.55e-01 88.5% 79.2%
2cz4A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 48.0 4.64e-01 88.5% 82.8%
4bhqA00 3.30.70.2830 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 53.0 4.89e-01 98.9% 95.4%
2e1bA02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.58 51.0 4.50e-01 100.0% 92.2%
4ympA00 2.60.40.1850 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 47.0 4.35e-01 100.0% 68.8%
4binA01 2.60.40.3500 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 43.0 3.97e-01 92.0% 61.2%
2db2A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 33.0 3.21e-01 96.6% 52.1%
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 35.0 3.67e-01 100.0% 69.7%
3j7yU00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.56 43.0 4.03e-01 83.9% 76.6%
5d4nC00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 46.0 4.48e-01 90.8% 80.6%
3nybA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.56 49.0 4.59e-01 100.0% 82.7%
6ziwI01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.55 39.0 4.08e-01 98.9% 83.3%
1kzlA02 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.55 37.0 3.53e-01 85.1% 59.4%
1a1xA00 2.40.15.10 Mainly Beta › Beta Barrel › Proto-oncogene - Oncogene Product P14tcl1 › TCL1/MTCP1 0.55 47.0 4.43e-01 94.3% 83.0%
1ulvA04 2.60.40.1190 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 50.0 3.57e-01 100.0% 55.1%
6iw6A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.54 47.0 4.45e-01 100.0% 79.6%
6i8wB01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 43.0 2.97e-01 88.5% 58.3%
3p24A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.53 44.0 3.62e-01 100.0% 51.0%
5ds1A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 43.0 4.25e-01 86.2% 100.0%
3d4eA01 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.53 30.0 3.12e-01 92.0% 57.1%
2y3uA02 3.30.980.50 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.52 46.0 4.25e-01 100.0% 86.7%
4mlgG00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.52 40.0 2.80e-01 85.1% 73.1%
5mj3A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 34.0 3.49e-01 82.8% 69.0%
1uuzB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.51 40.0 3.53e-01 83.9% 100.0%
4hvzA02 3.30.70.2970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 0.51 42.0 3.88e-01 90.8% 79.5%
3e0mC01 3.30.1060.10 Alpha Beta › 2-Layer Sandwich › Peptide Methionine Sulfoxide Reductase; Chain A › Peptide methionine sulphoxide reductase MsrA 0.51 44.0 3.57e-01 95.4% 72.6%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 36.0 3.10e-01 74.7% 55.7%
1ln1A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.50 41.0 3.30e-01 97.7% 48.3%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5056572 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.80 44.0 3.01e-01 100.0% 16.6%
3981113 283.2.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.75 46.0 4.21e-01 100.0% 49.5%
3834758 4956.1.1.0 a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.74 50.0 4.61e-01 70.1% 69.1%
4028387 304.9.1.1 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.72 49.0 4.83e-01 71.3% 83.2%
3355859 4956.1.1.0 a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.71 49.0 4.42e-01 71.3% 70.4%
4095611 304.9.1.80 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF27577 0.70 49.0 4.18e-01 72.4% 67.9%
4959470 873.1.1.12 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF27313 0.70 55.0 4.92e-01 98.9% 60.8%
3484885 304.55.2.0 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like 0.69 47.0 3.96e-01 70.1% 62.1%
5021128 873.1.1.12 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF27313 0.67 53.0 4.69e-01 98.9% 58.4%
3997443 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.67 52.0 5.61e-01 85.1% 97.3%
4033429 243.3.1.3 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY 0.66 34.0 3.58e-01 100.0% 53.8%
5006953 873.1.1.12 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF27313 0.66 53.0 5.05e-01 100.0% 75.0%
4966643 304.5.1.1 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.65 47.0 4.42e-01 75.9% 81.9%
5024203 330.10.1.0 a+b two layers › dsRBD-like › Heterocyclase TruD C-terminal domain › Heterocyclase TruD C-terminal domain 0.65 36.0 3.55e-01 93.1% 52.2%
5020278 3012.1.1.19 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › PF27313 0.64 51.0 4.66e-01 98.9% 64.3%
4965026 304.165.1.2 a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › BAT 0.64 52.0 4.34e-01 97.7% 51.3%
5065080 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.63 50.0 4.51e-01 97.7% 61.7%
4963322 304.165.1.2 a+b two layers › Alpha-beta plaits › Uncharacterized protein Ta1207 › Uncharacterized protein Ta1207 › BAT 0.62 47.0 4.09e-01 94.3% 51.4%
5022277 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.62 50.0 4.41e-01 93.1% 59.2%
5035479 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.62 48.0 4.80e-01 96.6% 81.1%
5012120 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.62 50.0 4.51e-01 96.6% 63.3%
4563127 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.61 50.0 4.71e-01 100.0% 74.3%
4118446 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.61 47.0 4.25e-01 88.5% 61.7%
4999368 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.61 55.0 4.36e-01 100.0% 56.6%
3166772 4958.1.1.0 a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit 0.60 46.0 4.31e-01 87.4% 66.7%
3623628 11.12.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.60 53.0 3.57e-01 100.0% 52.2%
3184994 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.60 48.0 4.16e-01 87.4% 56.9%
3550813 4956.1.1.0 a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.60 46.0 4.45e-01 88.5% 73.7%
3973260 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.60 51.0 4.55e-01 100.0% 65.6%
3393636 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.60 46.0 4.47e-01 88.5% 74.7%
3464174 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.60 46.0 4.39e-01 88.5% 71.0%
4277035 310.3.1.4 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › GspL_C 0.59 49.0 5.14e-01 100.0% 100.0%
3504523 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.59 46.0 4.48e-01 88.5% 75.8%
4809499 304.109.1.0 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.59 42.0 4.28e-01 75.9% 92.9%
5202 304.5.1.1 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.59 48.0 4.62e-01 88.5% 82.0%
4983622 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.58 52.0 4.24e-01 100.0% 58.2%
3262729 4956.1.1.0 a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.58 45.0 4.36e-01 88.5% 74.7%
5063340 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.58 52.0 4.43e-01 100.0% 63.2%
3604793 304.109.1.0 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.58 45.0 3.85e-01 86.2% 58.0%
3627004 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.57 45.0 4.28e-01 88.5% 72.0%
4059441 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.57 47.0 4.42e-01 88.5% 76.2%
3333590 304.3.1.1 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.57 49.0 4.97e-01 95.4% 98.8%
5017105 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.56 49.0 4.05e-01 100.0% 53.8%
3742672 4958.1.1.0 a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit 0.56 46.0 4.40e-01 88.5% 85.0%
3636970 4955.1.1.0 a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.56 46.0 4.24e-01 88.5% 81.8%
1179397 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.56 49.0 4.09e-01 100.0% 58.3%
5030373 1036.1.1.1 a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.55 47.0 4.64e-01 100.0% 87.4%
3304346 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 31.0 3.42e-01 92.0% 68.6%
4996474 873.1.1.22 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › PF25939 0.55 48.0 3.79e-01 100.0% 48.4%
4029423 305.1.1.0 a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.54 39.0 3.37e-01 77.0% 84.7%
3617179 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.54 46.0 3.89e-01 93.1% 56.6%
3721393 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.54 43.0 3.88e-01 87.4% 78.4%
3944541 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.54 44.0 4.09e-01 89.7% 77.3%
3741491 2003.1.5.63 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › CARME 0.54 47.0 3.15e-01 100.0% 58.4%
3638246 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.54 42.0 3.81e-01 87.4% 80.8%
3521712 109.6.1.1 alpha superhelices › Repetitive alpha hairpins › Ras GEF › Ras GEF › RasGEF 0.53 41.0 2.74e-01 100.0% 20.3%
3829625 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 45.0 3.91e-01 94.3% 73.7%
3593399 319.1.1.0 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.52 45.0 4.13e-01 93.1% 90.9%
4995034 2003.1.5.46 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.52 45.0 3.53e-01 100.0% 72.5%
4990736 241.1.1.0 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.51 45.0 3.73e-01 100.0% 73.1%
5015011 11.1.1.133 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glucodextran_C 0.51 45.0 3.29e-01 100.0% 59.2%
1125238 304.109.1.1 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_L23 0.50 39.0 3.98e-01 86.2% 94.3%
4928214 220.1.1.87 beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_3 0.50 44.0 3.81e-01 97.7% 70.9%