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NC_042098.1__YP_009621800.1__FDJ23_gp059__00059

Bact-Vir

NC_042098.1__YP_009621800.1__FDJ23_gp059__00059

Identity

Accession:
NC_042098 ↗
Kingdom:
phage

Quality

75.7 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 14-136
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3evzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.70 41.0 3.69e-01 93.5% 42.8%
2cdqA03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.68 38.0 4.49e-01 96.7% 79.8%
3keyA02 3.30.1370.230 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Stn1, C-terminal wHTH domain 0.67 45.0 5.18e-01 94.3% 95.5%
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.66 42.0 4.61e-01 100.0% 76.7%
1k85A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 32.0 3.77e-01 96.7% 64.8%
2ln3A00 3.30.110.140 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.65 36.0 4.24e-01 87.8% 79.5%
1tigA00 3.30.110.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Translation initiation factor 3 (IF-3), C-terminal domain 0.63 40.0 4.53e-01 95.9% 87.5%
3gm8A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 36.0 3.88e-01 96.7% 65.7%
2joeA01 3.30.1830.10 Alpha Beta › 2-Layer Sandwich › YehR-like fold › YehR-like 0.62 42.0 4.15e-01 73.2% 64.8%
1b24A01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.62 40.0 4.45e-01 89.4% 83.2%
6v6aC01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.60 36.0 4.23e-01 71.5% 85.7%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.59 29.0 3.25e-01 79.7% 57.8%
4bxiA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.58 43.0 4.07e-01 76.4% 92.5%
2gukA00 3.30.2190.10 Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like 0.58 33.0 3.43e-01 89.4% 58.6%
3tf8B00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.58 51.0 4.54e-01 100.0% 75.5%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.58 52.0 4.55e-01 100.0% 71.8%
5flmA02 3.30.1360.140 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.57 48.0 4.65e-01 100.0% 81.6%
3hduA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.55 41.0 3.81e-01 76.4% 77.6%
1ej8A00 2.60.40.200 Mainly Beta › Sandwich › Immunoglobulin-like › Superoxide dismutase, copper/zinc binding domain 0.55 40.0 3.84e-01 75.6% 73.6%
3nwzB00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 37.0 3.51e-01 95.9% 57.6%
3plsA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 34.0 3.64e-01 71.5% 73.1%
3r0aA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.54 30.0 3.12e-01 91.9% 55.8%
2bjnB00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.54 47.0 4.45e-01 95.9% 95.3%
3cueB00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.54 48.0 4.38e-01 100.0% 92.2%
3njcA00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.54 48.0 4.46e-01 99.2% 81.7%
6qpqB00 1.10.10.580 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Structural maintenance of chromosome 1. Chain E 0.54 33.0 3.86e-01 91.9% 92.6%
1c8uA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.53 34.0 3.55e-01 95.1% 68.7%
4hgzA02 2.20.25.570 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.52 26.0 3.41e-01 80.5% 93.3%
2py6A03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 38.0 3.38e-01 76.4% 90.0%
3f1jA00 2.70.20.40 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Borna disease virus, matrix protein 0.52 37.0 3.53e-01 90.2% 62.9%
3e29B00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.52 38.0 3.75e-01 76.4% 74.6%
2essA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.51 33.0 3.58e-01 94.3% 78.8%
1vk3A03 3.30.1330.10 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › PurM-like, N-terminal domain 0.51 38.0 3.64e-01 78.9% 85.7%
1ej6A02 3.55.60.10 Alpha Beta › 3-Layer(bab) Sandwich › Reovirus components fold › Reovirus components 0.50 35.0 3.34e-01 91.1% 59.5%
4aqzA00 2.60.40.3470 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 34.0 3.31e-01 91.1% 60.9%
ECOD (75)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3929061 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 0.72 43.0 4.85e-01 91.1% 76.8%
None 0.72 42.0 4.49e-01 87.8% 66.7%
3290652 306.2.1.0 a+b two layers › Glucose permease domain IIB-like › arginine repressor C terminal domain-related › C-terminal domain of arginine repressor 0.70 40.0 4.59e-01 88.6% 76.7%
5013983 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.68 38.0 3.89e-01 87.8% 55.0%
4272563 305.1.1.1 a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.67 42.0 4.61e-01 100.0% 77.0%
4998391 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.65 38.0 4.38e-01 88.6% 78.9%
4934956 310.3.1.0 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 0.63 43.0 4.98e-01 81.3% 98.8%
5024785 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.63 51.0 5.38e-01 95.1% 96.4%
4503816 328.3.1.1 a+b two layers › IF3-like › Translation initiation factor IF3, C-terminal domain › Translation initiation factor IF3, C-terminal domain › IF3_C 0.63 40.0 4.36e-01 95.9% 80.0%
5065498 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.63 56.0 4.86e-01 96.7% 86.5%
6663 4142.1.1.1 a+b two layers › YehR-like › YehR-like › YehR-like › DUF1307 0.62 42.0 4.12e-01 73.2% 63.8%
3967046 225.1.1.3 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c 0.62 46.0 4.59e-01 78.0% 93.1%
5072112 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.62 55.0 5.08e-01 95.9% 87.7%
3718799 225.1.1.0 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.62 45.0 4.28e-01 76.4% 87.3%
5052822 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.61 54.0 4.99e-01 96.7% 86.5%
4653780 3012.1.1.5 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain › T6PP_C 0.61 42.0 4.56e-01 83.7% 86.0%
3711148 312.1.1.0 a+b three layers › HIT-like › HIT-related › HIT-related 0.61 38.0 3.88e-01 90.2% 64.4%
5047390 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.61 56.0 5.15e-01 100.0% 94.8%
3959068 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.60 55.0 5.29e-01 100.0% 91.4%
4058525 4142.1.1.1 a+b two layers › YehR-like › YehR-like › YehR-like › DUF1307 0.60 40.0 4.00e-01 74.8% 65.6%
3979836 4142.1.1.1 a+b two layers › YehR-like › YehR-like › YehR-like › DUF1307 0.60 39.0 3.83e-01 73.2% 59.3%
5048004 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.60 55.0 4.28e-01 98.4% 70.8%
4947442 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.60 54.0 5.23e-01 100.0% 98.6%
4928954 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.60 54.0 5.38e-01 99.2% 100.0%
5064953 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.60 52.0 4.75e-01 94.3% 88.7%
3239376 2006.1.1.21 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › T6PP_C 0.59 41.0 3.08e-01 81.3% 28.2%
4933185 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.59 54.0 4.87e-01 100.0% 85.5%
4986012 101.1.2.14 alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.58 53.0 4.43e-01 100.0% 62.4%
5049726 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.58 53.0 4.88e-01 100.0% 92.4%
4153241 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.58 42.0 4.50e-01 93.5% 88.6%
4933495 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.58 51.0 4.71e-01 96.7% 88.1%
4929330 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.58 49.0 4.91e-01 100.0% 90.4%
4928493 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.57 50.0 5.05e-01 100.0% 95.8%
1839953 873.1.1.7 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › Arabinose_bd 0.57 51.0 4.43e-01 98.4% 80.4%
4996772 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.57 51.0 4.65e-01 98.4% 88.5%
4993609 873.1.1.19 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › MetOD1 0.57 49.0 4.43e-01 95.1% 86.2%
4997830 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.57 51.0 4.67e-01 99.2% 89.0%
137125 873.1.1.5 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › HNOB 0.57 50.0 4.44e-01 97.6% 75.7%
5074483 873.1.1.20 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › DUF6125 0.57 49.0 4.57e-01 96.7% 89.4%
5060591 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.57 49.0 4.72e-01 96.7% 89.6%
5046861 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.56 51.0 4.65e-01 99.2% 82.8%
5065675 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.56 51.0 4.76e-01 98.4% 90.0%
4971307 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.56 51.0 4.74e-01 99.2% 90.3%
4999540 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.56 51.0 4.76e-01 99.2% 93.3%
4957232 310.3.1.0 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 0.56 42.0 4.54e-01 79.7% 97.0%
5079094 873.1.1.13 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › ATC_hydrolase 0.56 49.0 4.56e-01 95.9% 90.3%
5076422 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.56 49.0 4.41e-01 96.7% 78.2%
5072409 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.55 48.0 4.30e-01 96.7% 77.2%
4992368 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.55 48.0 4.42e-01 97.6% 85.5%
4028357 873.1.1.4 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › TRAPP 0.55 45.0 4.44e-01 87.8% 90.8%
5051349 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.55 48.0 4.61e-01 96.7% 95.2%
4971929 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.55 50.0 4.54e-01 100.0% 80.6%
5049103 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.55 34.0 4.09e-01 89.4% 100.0%
4983424 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.55 50.0 4.51e-01 99.2% 93.9%
4992518 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.55 48.0 4.39e-01 95.1% 91.3%
3314304 3887.2.1.1 a+b two layers › Yeast killer toxin-like › Antifungal protein ginkbilobin-2 › Antifungal protein ginkbilobin-2 › Stress-antifung 0.55 38.0 4.01e-01 97.6% 82.9%
3413288 206.1.1.10 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.54 47.0 3.31e-01 92.7% 52.8%
3803494 3887.2.1.1 a+b two layers › Yeast killer toxin-like › Antifungal protein ginkbilobin-2 › Antifungal protein ginkbilobin-2 › Stress-antifung 0.54 40.0 4.12e-01 97.6% 80.0%
3835922 3887.2.1.1 a+b two layers › Yeast killer toxin-like › Antifungal protein ginkbilobin-2 › Antifungal protein ginkbilobin-2 › Stress-antifung 0.54 41.0 4.23e-01 96.7% 82.5%
4999609 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.54 48.0 3.69e-01 99.2% 46.1%
3173046 304.162.1.2 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › FLAD1_M 0.54 33.0 3.77e-01 76.4% 83.1%
4134403 109.4.1.613 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Asp_Glu_race_2 0.54 47.0 3.24e-01 93.5% 34.3%
3918547 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 47.0 3.83e-01 94.3% 58.7%
4604968 109.4.1.613 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Asp_Glu_race_2 0.54 47.0 2.99e-01 93.5% 24.5%
3865345 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 47.0 3.71e-01 93.5% 57.9%
4936751 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.53 48.0 4.41e-01 100.0% 75.0%
5070181 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.53 46.0 4.35e-01 96.7% 91.9%
3279065 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.53 45.0 3.50e-01 94.3% 68.7%
5072113 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.52 45.0 4.62e-01 97.6% 100.0%
4411010 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.52 44.0 4.31e-01 96.7% 84.4%
3626480 331.10.1.1 a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase › SAM_decarbox 0.52 41.0 3.06e-01 84.6% 48.1%
2063291 331.10.1.1 a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase › SAM_decarbox 0.52 38.0 3.84e-01 82.1% 75.8%
4999898 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.51 31.0 3.51e-01 90.2% 81.1%
3599120 331.10.1.0 a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase 0.51 44.0 3.27e-01 99.2% 88.5%
3515869 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 37.0 2.70e-01 77.2% 49.6%