←Back to structures

NC_042116.1__YP_009623814.1__FDJ41_gp204__00204

Bact-Vir

NC_042116.1__YP_009623814.1__FDJ41_gp204__00204

Identity

Accession:
NC_042116 ↗
Kingdom:
phage

Quality

70.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Eneladusvirus› Yersinia_phage_fHe-Yen9-04

TaxID: 2052742

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 13-106
PDB
Domain cluster: rep: NC_042116.1__YP_009623814.1__FDJ41_gp204__00204__D247-339
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1itvA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.59 50.0 4.04e-01 96.8% 85.6%
1hxnA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.59 51.0 4.01e-01 100.0% 85.7%
4a2lF02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 48.0 3.39e-01 92.6% 92.5%
2bf6A02 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.57 34.0 3.98e-01 73.4% 84.8%
3ottB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 49.0 3.45e-01 100.0% 82.6%
2xzm901 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.56 34.0 3.87e-01 92.6% 80.6%
3c7xA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.55 48.0 3.84e-01 97.9% 85.2%
3mmyA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 47.0 3.30e-01 100.0% 89.3%
4hdjA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 43.0 3.01e-01 92.6% 89.9%
3dxvA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 41.0 3.50e-01 81.9% 86.2%
1h8mA00 3.30.450.50 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin domain 0.52 39.0 3.41e-01 77.7% 99.3%
3zqmA00 6.10.140.2160 Special › Helix non-globular › Helix Hairpins › 0.52 25.0 3.08e-01 87.2% 72.9%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4392263 5.1.4.40 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PQQ_2 0.59 45.0 3.13e-01 84.0% 81.3%
3783013 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.58 47.0 3.37e-01 91.5% 97.8%
3910394 5.1.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.58 50.0 3.99e-01 98.9% 84.5%
4969887 206.1.2.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › SAICAR_synt 0.56 47.0 3.58e-01 96.8% 72.8%
3415237 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 41.0 3.14e-01 79.8% 64.7%
4614679 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 28.0 3.47e-01 73.4% 92.0%
3787201 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.53 38.0 3.83e-01 76.6% 76.5%
3827973 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.52 40.0 2.88e-01 85.1% 89.4%
3405299 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 39.0 3.02e-01 80.9% 52.0%
4389625 375.1.1.47 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC 0.52 28.0 3.38e-01 73.4% 85.5%
4120506 243.11.1.4 ↗ a+b two layers › Cystatin-like › NP_346341.1 protein › NP_346341.1 protein › PF29632 0.52 32.0 3.44e-01 86.2% 72.5%
4944860 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 36.0 3.15e-01 72.3% 64.3%
5076763 304.120.1.6 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › ThiI_fer 0.51 37.0 4.09e-01 80.9% 97.3%
4389679 4959.1.1.1 ↗ a+b complex topology › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › first helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_3 0.51 26.0 2.41e-01 90.4% 34.1%
D2 high residues 247-339
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nkbB02 3.30.1120.130 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.63 40.0 4.08e-01 76.3% 66.7%
4a2lF02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 51.0 3.60e-01 92.5% 92.5%
4ci8A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 50.0 3.53e-01 93.5% 94.9%
3c7xA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.57 49.0 3.93e-01 97.8% 84.7%
4wjsA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 47.0 3.21e-01 95.7% 96.1%
3ottB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 48.0 3.45e-01 100.0% 82.3%
2pt7C01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.53 39.0 3.85e-01 82.8% 87.7%
2vugA03 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.51 42.0 4.10e-01 90.3% 94.1%
2ewvA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 38.0 3.75e-01 81.7% 86.3%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3729971 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.60 52.0 3.60e-01 100.0% 70.6%
3910394 5.1.1.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.60 53.0 4.16e-01 100.0% 83.5%
3838251 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.60 52.0 3.73e-01 98.9% 81.7%
4243231 5.1.4.172 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_CAF1B_HIR1 0.57 49.0 3.08e-01 100.0% 46.4%
3926041 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.56 48.0 3.42e-01 100.0% 77.5%
3940562 5.1.4.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40,ANAPC4_WD40 0.55 47.0 3.28e-01 100.0% 91.4%
4104131 5.1.4.271 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, PF30361 0.55 47.0 3.17e-01 100.0% 90.8%
5043479 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 46.0 3.40e-01 100.0% 87.9%
3792083 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 45.0 3.19e-01 100.0% 72.6%
3629602 5.1.5.148 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, HELP, Beta-prop_EML 0.52 45.0 3.16e-01 100.0% 93.8%
3972267 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.52 43.0 3.12e-01 100.0% 92.2%
D3 high residues 399-446
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nnaA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.79 59.0 3.49e-01 79.2% 68.8%
7tzoA01 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.56 39.0 2.83e-01 79.2% 36.2%
1bf3A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 43.0 2.87e-01 100.0% 90.8%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3732358 604.12.1.42 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › DUF202 0.77 59.0 4.61e-01 83.3% 76.2%
3690520 192.29.1.128 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF202 0.77 59.0 4.66e-01 83.3% 80.0%
3207663 605.4.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › DUF202 0.75 58.0 4.44e-01 83.3% 75.0%
2075013 601.2.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › Cytochromes › Cytochromes › 7tm_1,Cytochrom_B562 0.74 54.0 4.49e-01 79.2% 84.5%
3607282 375.1.9.30 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase › DUF7623 0.69 50.0 4.19e-01 77.1% 67.5%
3979252 601.46.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Regulatory CZB domain of diguanylate cyclase YdeH › Regulatory CZB domain of diguanylate cyclase YdeH › CZB 0.67 49.0 3.94e-01 85.4% 68.2%
3704808 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 43.0 2.61e-01 97.9% 11.0%