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NC_022764.1__YP_008770555.1__Page_48__00048

Bact-Vir

NC_022764.1__YP_008770555.1__Page_48__00048

Identity

Accession:
NC_022764 ↗
Kingdom:
phage

Quality

71.1 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 2-64
PDB
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.72 55.0 5.18e-01 100.0% 68.4%
6gszA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 48.0 4.10e-01 100.0% 45.1%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.66 50.0 4.21e-01 100.0% 47.7%
2fg9A01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.65 49.0 3.71e-01 100.0% 32.7%
1konA02 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.65 44.0 3.99e-01 98.4% 50.0%
3rj2X00 2.60.120.1150 Mainly Beta › Sandwich › Jelly Rolls › 0.64 44.0 3.43e-01 100.0% 33.8%
1wv4B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.64 50.0 3.77e-01 100.0% 35.1%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.63 49.0 4.36e-01 100.0% 57.1%
3ig5A02 3.30.590.50 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › 0.63 56.0 3.46e-01 100.0% 29.3%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.61 40.0 3.80e-01 100.0% 55.1%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 50.0 4.27e-01 100.0% 55.0%
2d37A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.61 48.0 3.64e-01 100.0% 35.5%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.60 43.0 3.22e-01 100.0% 29.3%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.60 46.0 4.09e-01 100.0% 57.3%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.59 45.0 4.24e-01 100.0% 68.8%
1dleA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 41.0 3.33e-01 100.0% 36.4%
4nx9A02 2.60.40.4390 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 52.0 4.19e-01 100.0% 62.8%
1ca1A02 2.60.60.20 Mainly Beta › Sandwich › Lipoxygenase-1 › PLAT/LH2 domain 0.58 51.0 4.17e-01 100.0% 76.7%
2z3gB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.57 45.0 3.59e-01 100.0% 42.5%
1xvsA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.57 45.0 3.63e-01 100.0% 43.9%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 41.0 3.56e-01 100.0% 49.0%
1b1zA02 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 48.0 3.85e-01 100.0% 73.5%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.56 41.0 3.66e-01 100.0% 53.2%
2f1eA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.56 43.0 3.61e-01 100.0% 46.6%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 48.0 3.99e-01 100.0% 52.9%
2fr5A00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.56 44.0 3.44e-01 100.0% 39.7%
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 0.56 44.0 3.33e-01 100.0% 33.7%
6z9cA01 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.56 44.0 3.56e-01 100.0% 45.1%
1ty0B01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 46.0 3.71e-01 98.4% 75.0%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.55 39.0 3.29e-01 100.0% 44.0%
1hxmA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 48.0 3.89e-01 100.0% 52.9%
3nd1A02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.54 39.0 3.25e-01 100.0% 43.6%
2irmA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.53 46.0 2.94e-01 100.0% 29.8%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 45.0 4.01e-01 100.0% 96.9%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.52 38.0 3.48e-01 100.0% 55.4%
4bfeC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 45.0 3.79e-01 100.0% 60.4%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.50 40.0 3.98e-01 100.0% 83.1%
4p04A01 2.60.40.3100 Mainly Beta › Sandwich › Immunoglobulin-like › Arylsulphate sulphotransferase monomer, N-terminal domain 0.50 35.0 3.03e-01 100.0% 44.3%
3gqsB00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.50 44.0 3.78e-01 100.0% 98.0%
ECOD (68)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588755 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.81 73.0 6.97e-01 100.0% 87.8%
3600531 4012.3.1.0 a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.73 55.0 5.93e-01 98.4% 96.2%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.72 55.0 5.18e-01 100.0% 69.3%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.70 53.0 5.04e-01 100.0% 69.3%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.70 53.0 5.44e-01 100.0% 88.1%
4004704 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.69 46.0 5.14e-01 100.0% 95.6%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.69 52.0 5.10e-01 100.0% 74.3%
5065436 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.69 52.0 5.25e-01 100.0% 81.2%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.69 52.0 5.32e-01 100.0% 86.7%
3968122 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.69 45.0 5.10e-01 100.0% 95.6%
4463006 3115.2.1.0 a+b two layers › GP2-like › GP2 › GP2 0.69 46.0 5.11e-01 100.0% 97.8%
4990637 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 53.0 4.83e-01 100.0% 63.9%
4007508 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.68 45.0 4.88e-01 100.0% 86.0%
3969006 3115.6.1.2 a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › PF28597 0.68 45.0 5.02e-01 100.0% 95.6%
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 51.0 5.19e-01 100.0% 82.5%
4937773 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.68 52.0 5.35e-01 100.0% 89.7%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.67 51.0 5.31e-01 100.0% 94.5%
3705856 4121.1.1.1 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.67 46.0 2.93e-01 100.0% 15.0%
3728473 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.67 58.0 4.20e-01 100.0% 33.7%
4160542 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.66 50.0 5.15e-01 100.0% 89.7%
4647537 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 0.66 48.0 4.13e-01 100.0% 46.4%
3182286 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.66 55.0 3.95e-01 100.0% 31.9%
4375028 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.65 56.0 4.56e-01 100.0% 91.2%
4281749 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 0.64 50.0 4.12e-01 100.0% 45.8%
4028488 224.1.1.0 a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like 0.64 42.0 3.23e-01 100.0% 30.0%
3285401 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.64 44.0 4.22e-01 100.0% 61.3%
3216210 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.64 46.0 4.94e-01 100.0% 96.0%
3959440 4.1.1.180 beta barrels › SH3 › SH3 › SH3 › DUF3107 0.64 54.0 5.41e-01 96.8% 98.5%
4155354 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 0.64 47.0 3.94e-01 100.0% 43.3%
4331814 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 0.64 47.0 3.99e-01 100.0% 45.2%
4490981 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 0.64 47.0 4.04e-01 100.0% 47.3%
4013514 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.63 50.0 4.28e-01 100.0% 53.3%
4300924 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 46.0 3.93e-01 100.0% 45.2%
5015713 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.63 51.0 5.28e-01 100.0% 96.7%
4031279 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 49.0 3.88e-01 100.0% 40.0%
3972526 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 53.0 5.22e-01 100.0% 94.3%
3933380 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 0.62 49.0 4.15e-01 100.0% 49.6%
4568546 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 0.62 48.0 3.98e-01 100.0% 46.2%
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 0.62 48.0 4.06e-01 100.0% 48.7%
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 0.61 51.0 4.22e-01 100.0% 49.6%
4977520 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 0.61 48.0 4.10e-01 100.0% 50.9%
3194676 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 52.0 4.71e-01 100.0% 95.6%
4078508 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 0.61 47.0 3.99e-01 100.0% 48.7%
4450183 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 0.61 47.0 3.99e-01 100.0% 48.7%
4983111 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 44.0 4.19e-01 100.0% 65.3%
5049412 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 47.0 3.84e-01 100.0% 44.8%
4939155 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 46.0 3.87e-01 100.0% 47.1%
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 0.59 49.0 4.00e-01 100.0% 48.0%
5026373 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.59 49.0 4.22e-01 100.0% 97.3%
4271892 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 51.0 4.12e-01 100.0% 50.4%
2870324 4012.3.1.1 a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 › Cas9_PI 0.59 45.0 4.69e-01 100.0% 93.1%
4327417 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 0.58 46.0 3.87e-01 100.0% 49.6%
3968389 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 0.58 44.0 3.91e-01 100.0% 55.0%
3593981 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 0.57 45.0 3.90e-01 100.0% 53.3%
5000446 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.57 47.0 4.32e-01 100.0% 94.4%
4954871 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.57 47.0 4.03e-01 100.0% 98.3%
3213272 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.57 46.0 2.60e-01 100.0% 61.3%
4373012 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 43.0 3.70e-01 100.0% 50.0%
4946583 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 0.56 45.0 3.83e-01 100.0% 52.2%
3704579 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 39.0 3.00e-01 84.1% 29.7%
4996322 821.1.1.14 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF2797 0.55 39.0 3.38e-01 76.2% 87.6%
2006900 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.55 39.0 3.47e-01 100.0% 49.0%
3928420 3680.1.1.0 a+b complex topology › Zinc finger FYVE domain-containing protein 9 C-terminal domain › Zinc finger FYVE domain-containing protein 9 C-terminal domain › Zinc finger FYVE domain-containing protein 9 C-terminal domain 0.54 40.0 3.10e-01 81.0% 92.7%
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 0.54 41.0 3.62e-01 100.0% 51.8%
5029262 4114.1.1.0 a+b two layers › PHP14-like › PHP14-like › PHP14-like 0.53 45.0 3.75e-01 100.0% 55.5%
4585641 10.32.1.18 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Endotoxin_C 0.53 43.0 3.36e-01 100.0% 40.0%
3686997 304.9.1.6 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › Smg4_UPF3 0.52 45.0 4.41e-01 100.0% 92.9%
2070372 304.28.1.5 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › NPC1_MLD 0.51 38.0 2.64e-01 85.7% 44.0%
D2 high residues 68-129
PDB