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NC_052661.1__YP_009986765.1__JR326_gp109__00109

Bact-Vir

NC_052661.1__YP_009986765.1__JR326_gp109__00109

Identity

Accession:
NC_052661 ↗
Kingdom:
phage

Quality

81.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Phapecoctavirus› Escherichia_phage_ukendt

TaxID: 2696458

Cluster

View cluster (14 members)

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 2-69
PDB
Domain cluster: rep: DGJ7_scaffold_2_2069_prodigal-single.1__X__X__00382__D4-65
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gccA00 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.78 51.0 5.34e-01 91.2% 73.0%
2crmA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.74 49.0 4.66e-01 100.0% 58.2%
2ebmA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.64 43.0 3.54e-01 70.6% 46.9%
1cfbA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 43.0 3.86e-01 100.0% 47.2%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.62 52.0 4.53e-01 100.0% 59.6%
3fl7A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 40.0 3.76e-01 100.0% 52.3%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 46.0 4.00e-01 100.0% 51.4%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.60 48.0 4.35e-01 100.0% 63.5%
2irmA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.60 51.0 3.36e-01 100.0% 96.8%
1qr4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 41.0 3.85e-01 100.0% 56.3%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.59 50.0 4.29e-01 100.0% 58.0%
2e1qC10 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.59 41.0 3.44e-01 75.0% 57.0%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 42.0 3.87e-01 97.1% 57.6%
7pupA01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 37.0 2.63e-01 100.0% 20.0%
3hvnA01 3.90.840.10 Alpha Beta › Alpha-Beta Complex › HIV-1 Reverse Transcriptase; Chain A, domain 3 › Thiol-activated cytolysin superfamily/Thiol-activated cytolysin, alpha-beta domain 0.58 47.0 3.69e-01 100.0% 38.4%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 43.0 4.21e-01 100.0% 73.7%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.58 41.0 3.58e-01 100.0% 47.7%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.58 42.0 3.83e-01 98.5% 57.4%
4brvA00 2.60.40.730 Mainly Beta › Sandwich › Immunoglobulin-like › SOR catalytic domain 0.57 41.0 3.46e-01 100.0% 43.5%
1txoB00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 48.0 3.42e-01 100.0% 44.5%
2pstX00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.56 40.0 4.23e-01 88.2% 85.2%
6grsA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 41.0 3.75e-01 100.0% 57.9%
3nkgA00 2.60.120.790 Mainly Beta › Sandwich › Jelly Rolls › 0.55 49.0 3.66e-01 100.0% 84.1%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.55 46.0 3.55e-01 98.5% 90.4%
4gxbA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 37.0 3.35e-01 100.0% 49.5%
1uunA01 2.60.40.1650 Mainly Beta › Sandwich › Immunoglobulin-like › Porin MspA (Ig-like beta-sandwich domain) 0.54 40.0 3.36e-01 100.0% 43.2%
1alo006 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.54 40.0 3.38e-01 82.4% 87.3%
2avxA00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.53 38.0 2.82e-01 75.0% 77.8%
5l73A00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 46.0 3.49e-01 100.0% 50.6%
1iuhA00 3.90.1140.10 Alpha Beta › Alpha-Beta Complex › Cyclic Phosphodiesterase; Chain: A, › Cyclic phosphodiesterase 0.53 44.0 3.30e-01 95.6% 89.6%
5hdwA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.52 41.0 3.48e-01 92.6% 100.0%
4ccjA01 2.60.120.650 Mainly Beta › Sandwich › Jelly Rolls › Cupin 0.52 34.0 2.40e-01 100.0% 18.7%
1b1zA02 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 43.0 3.59e-01 98.5% 74.3%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.52 42.0 3.73e-01 95.6% 84.4%
5vqfD01 2.60.120.970 Mainly Beta › Sandwich › Jelly Rolls › 0.52 43.0 3.10e-01 98.5% 32.7%
1dg6A00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.51 44.0 3.49e-01 100.0% 67.1%
1etb200 2.60.40.180 Mainly Beta › Sandwich › Immunoglobulin-like › Transthyretin/hydroxyisourate hydrolase domain 0.51 42.0 3.66e-01 97.1% 100.0%
1s55A00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.51 39.0 3.11e-01 98.5% 37.8%
1ayrB02 2.60.40.640 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 44.0 3.28e-01 100.0% 52.5%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2028252 3986.2.1.1 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd › Dmd 0.71 49.0 5.06e-01 98.5% 76.6%
3721982 304.14.1.0 ↗ a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) 0.70 63.0 5.58e-01 98.5% 97.9%
3734833 304.14.1.0 ↗ a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) 0.70 63.0 5.68e-01 98.5% 98.9%
3285401 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.70 50.0 4.89e-01 100.0% 69.3%
5015713 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.65 51.0 5.35e-01 98.5% 98.3%
3499188 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.65 47.0 4.13e-01 98.5% 52.0%
3969006 3115.6.1.2 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.64 42.0 4.73e-01 100.0% 100.0%
4970244 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 49.0 4.17e-01 100.0% 50.9%
3683470 2002.1.1.30 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.63 52.0 3.63e-01 92.6% 28.7%
3615237 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.63 54.0 3.48e-01 100.0% 46.4%
3573883 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.63 53.0 4.43e-01 100.0% 52.8%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.63 46.0 4.99e-01 100.0% 100.0%
3909420 11.1.1.129 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Interfer-bind 0.63 41.0 3.74e-01 100.0% 48.4%
3941935 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.63 47.0 4.06e-01 100.0% 49.6%
3933592 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.62 46.0 3.65e-01 100.0% 36.7%
5054505 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.61 54.0 4.93e-01 100.0% 97.8%
3624321 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.60 54.0 4.06e-01 100.0% 93.3%
4965895 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.60 46.0 4.09e-01 100.0% 57.0%
4951473 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 44.0 4.59e-01 100.0% 88.9%
3760983 3335.1.1.3 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › KCTD18_C 0.60 53.0 4.68e-01 98.5% 100.0%
5067865 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.60 44.0 4.45e-01 100.0% 80.0%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.60 45.0 4.70e-01 100.0% 96.6%
4035839 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.60 48.0 4.10e-01 100.0% 53.9%
4990154 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.60 52.0 4.43e-01 97.1% 100.0%
4088887 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.59 47.0 4.07e-01 100.0% 55.5%
5039254 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 43.0 4.27e-01 100.0% 75.7%
3955717 302.1.1.0 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.59 50.0 4.19e-01 100.0% 53.6%
4967222 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.59 45.0 4.66e-01 100.0% 96.7%
4011615 2492.1.1.32 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › OTT_1508_deam 0.58 50.0 3.72e-01 98.5% 67.0%
3574420 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 41.0 3.20e-01 75.0% 45.6%
5064795 264.2.1.1 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.58 51.0 4.27e-01 100.0% 97.5%
4969863 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.58 43.0 4.27e-01 100.0% 76.0%
4960126 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.58 52.0 4.01e-01 100.0% 46.0%
4944411 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 38.0 3.16e-01 70.6% 34.8%
3905094 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 48.0 3.97e-01 100.0% 50.4%
3266917 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.57 47.0 3.11e-01 95.6% 47.0%
3213931 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.57 48.0 4.00e-01 100.0% 53.8%
3994984 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 44.0 4.55e-01 100.0% 93.8%
3531113 223.2.1.25 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Avl9 0.56 38.0 2.71e-01 70.6% 27.6%
5043306 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 40.0 3.79e-01 97.1% 61.1%
3531180 223.2.1.25 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Avl9 0.56 38.0 2.79e-01 70.6% 32.4%
3222254 304.9.1.40 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › BRAP2 0.55 47.0 4.02e-01 100.0% 70.6%
3935630 3346.1.1.0 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 0.55 43.0 3.09e-01 85.3% 74.1%
3535501 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.54 45.0 3.87e-01 100.0% 56.5%
4971848 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 2.68e-01 100.0% 19.0%
2887044 54.1.1.6 ↗ beta barrels › EV matrix protein › EV matrix protein › EV matrix protein › Matrix_Paramyxo_C 0.54 49.0 3.70e-01 100.0% 65.2%
None — 0.53 45.0 4.12e-01 98.5% 77.9%
3203256 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.53 44.0 2.83e-01 100.0% 48.4%
3378574 304.112.1.3 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain › ArgoN 0.52 44.0 4.04e-01 100.0% 98.9%
3615747 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 43.0 3.04e-01 89.7% 88.1%
3299910 11.1.1.14 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glyco_hydro_2 0.51 44.0 3.76e-01 100.0% 60.0%
3578579 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.50 42.0 3.63e-01 100.0% 96.7%
3498250 3767.1.1.0 ↗ a+b two layers › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain › Giardia Dicer N-terminal domain 0.50 42.0 3.04e-01 100.0% 32.4%