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NC_049380.1__YP_009876259.1__HYP07_gp034__00034

Bact-Vir

NC_049380.1__YP_009876259.1__HYP07_gp034__00034

Identity

Accession:
NC_049380 ↗
Kingdom:
phage

Quality

69.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Pacinivirus› Vibrio_phage_JSF3

TaxID: 1916111

Cluster

View cluster (2 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 21-82
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6o9aA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.60 47.0 3.63e-01 88.7% 41.7%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4943719 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.66 46.0 3.73e-01 87.1% 38.3%
4992636 164.1.1.1 ↗ alpha bundles › Chorismate mutase II › Chorismate mutase II › Chorismate mutase II › CM_2 0.65 55.0 4.67e-01 98.4% 56.2%
4167084 323.1.1.7 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Transferase 0.59 48.0 3.09e-01 90.3% 44.1%
4615694 140.1.1.4 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1e,DALR_2 0.59 38.0 2.67e-01 83.9% 19.1%
3398568 103.1.1.35 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › DUF4778 0.52 36.0 3.22e-01 74.2% 48.5%
D2 medium residues 85-234
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.62 22.0 3.79e-01 87.3% 100.0%
2kxgA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.62 32.0 3.89e-01 98.7% 75.8%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.60 31.0 3.69e-01 74.0% 70.6%
4r03A00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.57 28.0 3.27e-01 98.7% 63.3%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5041149 4.26.1.9 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 › CPxCG_zf 0.63 21.0 3.77e-01 90.0% 100.0%
3581448 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.57 32.0 3.64e-01 97.3% 71.3%
3886819 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 27.0 3.60e-01 91.3% 85.9%
4225360 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.52 33.0 3.56e-01 96.7% 75.2%
4878713 331.3.1.42 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Mtb12_C 0.51 33.0 4.04e-01 98.7% 98.0%
4963489 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 32.0 3.64e-01 95.3% 82.6%
D3 medium residues 309-371_427-493
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sqjB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 42.0 2.91e-01 84.6% 92.0%
1h54A03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.51 25.0 3.11e-01 86.9% 75.7%
6p2lA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 40.0 2.92e-01 84.6% 95.7%
1z94B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 40.0 3.95e-01 85.4% 97.9%
3eliA00 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 3.98e-01 86.9% 98.6%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2233 5.1.4.406 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › BNR_6, Sortilin-Vps10, PF25852 0.52 41.0 2.92e-01 84.6% 96.7%
5052205 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.52 42.0 2.68e-01 84.6% 82.2%
4568468 5.1.4.484 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › BNR_6, Sortilin-Vps10 0.51 41.0 2.90e-01 86.2% 94.9%
3724553 331.3.1.9 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.51 41.0 3.92e-01 86.9% 85.2%
3199079 331.3.1.9 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.51 41.0 4.00e-01 86.9% 89.7%
3168583 3435.1.1.2 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-N 0.50 38.0 3.88e-01 93.1% 80.0%
D4 medium residues 372-426
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1tkkA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 40.0 3.20e-01 78.2% 34.8%
2pn5A06 2.20.130.20 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › 0.57 35.0 2.96e-01 87.3% 35.1%
2e6jA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 40.0 3.32e-01 85.5% 80.4%
2mh4A00 2.60.40.1080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 39.0 3.42e-01 85.5% 64.1%
2l7eA00 2.60.40.1970 Mainly Beta › Sandwich › Immunoglobulin-like › YEATS domain 0.52 35.0 2.83e-01 78.2% 32.5%
7t4dA01 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.51 39.0 2.59e-01 94.5% 84.8%
2oz8A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 34.0 2.75e-01 78.2% 31.8%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3839919 5084.1.1.15 ↗ beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › HP_OMP 0.56 45.0 3.19e-01 100.0% 74.0%
3241258 4154.1.1.1 ↗ beta duplicates or obligate multimers › E2F-DP heterodimerization region › E2F-DP heterodimerization region › E2F-DP heterodimerization region › DP 0.56 27.0 1.97e-01 72.7% 14.7%
4078175 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 37.0 3.13e-01 70.9% 67.4%
4980389 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 40.0 3.47e-01 83.6% 69.5%
3277579 11.13.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Leukocidin-like › Leukocidin-like 0.54 44.0 2.80e-01 94.5% 68.0%
3482726 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 38.0 3.00e-01 78.2% 50.8%
3228898 11.1.1.196 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › N_BRCA1_IG 0.52 40.0 3.17e-01 87.3% 56.0%
5024850 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 39.0 3.30e-01 85.5% 65.0%
3380147 10.12.1.16 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy 0.51 37.0 2.47e-01 80.0% 46.7%
3967497 5085.1.1.1 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.51 36.0 2.24e-01 81.8% 44.1%
D5 medium residues 512-697
PDB