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NC_007149.1__YP_249596.1__VVP4_p28__00028

Bact-Vir

NC_007149.1__YP_249596.1__VVP4_p28__00028

Identity

Accession:
NC_007149 ↗
Kingdom:
phage

Quality

65.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autotranscriptaviridae› Chatterjeevirus› Vibrio_phage_VP4

TaxID: 329886

Cluster

Singleton — not in a non-trivial cluster

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 high residues 10-119
PDB
Domain cluster: rep: NC_027397.1__YP_009153046.1__ACQ41_gp20__00020__D9-117
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03906.21 best Phage_T7_tail 122.3 1.80e-35 99.1% 78.4%
D2 high residues 493-632
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4lr4A01 2.60.120.1420 Mainly Beta › Sandwich › Jelly Rolls › 0.66 46.0 4.25e-01 86.4% 56.8%
4i0wD02 2.60.120.1290 Mainly Beta › Sandwich › Jelly Rolls › 0.65 48.0 5.01e-01 85.0% 83.8%
2jdaB00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.63 44.0 4.47e-01 93.6% 71.1%
1xe0C00 2.60.120.340 Mainly Beta › Sandwich › Jelly Rolls › Nucleoplasmin core domain 0.62 38.0 4.31e-01 85.0% 83.2%
1sefA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 35.0 3.81e-01 92.9% 67.2%
1mkfA02 2.60.40.1340 Mainly Beta › Sandwich › Immunoglobulin-like › Chemokine-binding protein M3-like 0.59 46.0 4.29e-01 81.4% 94.8%
2jwpA00 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.59 43.0 3.98e-01 75.0% 93.7%
1s2kA00 2.60.120.700 Mainly Beta › Sandwich › Jelly Rolls › Peptidase G1 0.55 42.0 3.78e-01 80.7% 88.4%
4m9pA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 32.0 3.70e-01 81.4% 80.0%
1umzA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 48.0 3.95e-01 100.0% 81.3%
1wlhA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 32.0 3.64e-01 82.1% 78.1%
2uwaA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 48.0 3.91e-01 100.0% 78.8%
1nxmA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 39.0 3.53e-01 92.1% 54.6%
1cq3A00 2.60.240.10 Mainly Beta › Sandwich › Viral Chemokine Inhibitor; Chain A › Major secreted virus protein 0.53 44.0 3.75e-01 88.6% 92.9%
4awdB00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.53 42.0 3.37e-01 85.7% 65.8%
1mveA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 42.0 3.58e-01 87.1% 71.9%
5ocqA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 41.0 3.43e-01 85.7% 87.1%
1gbgA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 42.0 3.68e-01 85.7% 70.6%
2bw8A00 2.60.120.180 Mainly Beta › Sandwich › Jelly Rolls › Glycoside hydrolase family 11/12, catalytic domain 0.52 42.0 3.58e-01 85.0% 73.0%
1lshA01 2.30.230.10 Mainly Beta › Roll › Lipovitellin-phosvitin complex; beta-sheet shell regions › Lipovitellin; beta-sheet shell regions, chain A 0.52 40.0 3.23e-01 79.3% 100.0%
4umgA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 33.0 3.69e-01 83.6% 85.3%
5hbaA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.52 38.0 3.90e-01 76.4% 96.2%
2c4xA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 37.0 3.65e-01 75.7% 75.6%
2k75A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 26.0 3.02e-01 80.7% 66.0%
2c9aA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 37.0 3.58e-01 75.7% 69.8%
2df7A02 2.60.120.660 Mainly Beta › Sandwich › Jelly Rolls › icosahedral virus 0.51 38.0 3.82e-01 85.7% 78.6%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3251054 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.75 66.0 6.39e-01 93.6% 97.4%
2512673 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.75 56.0 5.85e-01 82.9% 84.9%
3591997 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.74 48.0 5.00e-01 86.4% 70.8%
3609844 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.70 51.0 5.02e-01 74.3% 90.0%
4009121 11.1.1.1285 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF31090 0.70 63.0 5.97e-01 97.1% 95.2%
2581320 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 53.0 5.55e-01 80.7% 96.0%
5009955 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.67 44.0 4.88e-01 90.7% 83.6%
3624575 10.32.1.72 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › TPPII_GBD 0.65 43.0 4.64e-01 85.7% 79.2%
2491349 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 50.0 4.69e-01 82.1% 97.7%
3488117 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.61 50.0 4.65e-01 85.7% 91.2%
4003995 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.61 42.0 4.14e-01 87.9% 65.3%
1030893 11.26.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Viral chemokine binding protein m3 › Viral chemokine binding protein m3 › M3 0.59 46.0 4.28e-01 81.4% 94.2%
3392961 10.2.1.31 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin 0.59 40.0 4.31e-01 85.0% 81.7%
3716738 11.10.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.58 37.0 3.62e-01 97.1% 56.8%
5030450 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 41.0 4.09e-01 84.3% 69.0%
3991550 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.57 35.0 3.91e-01 83.6% 80.0%
3423177 10.1.1.58 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Neprosin 0.56 46.0 3.87e-01 87.9% 83.3%
3644938 10.1.1.58 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Neprosin 0.56 46.0 3.83e-01 87.9% 82.9%
3477632 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.56 45.0 4.31e-01 85.7% 75.6%
3456752 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.55 45.0 3.36e-01 87.1% 57.5%
4564179 10.1.1.26 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Glyco_hydro_32C 0.55 44.0 4.00e-01 85.0% 82.0%
3331552 10.1.1.58 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Neprosin 0.55 44.0 3.61e-01 87.1% 77.4%
3813157 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.54 44.0 3.41e-01 86.4% 62.0%
3659345 10.1.1.12 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Glyco_hydro_16,XET_C 0.54 47.0 3.79e-01 100.0% 81.6%
3580269 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.54 32.0 3.76e-01 84.3% 85.3%
3822249 10.1.1.12 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Glyco_hydro_16,XET_C 0.53 47.0 3.85e-01 100.0% 86.6%
5019985 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.53 43.0 3.79e-01 86.4% 73.8%
3525668 10.32.1.69 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › LAMININ_IV_B 0.53 44.0 3.81e-01 90.0% 67.7%
3297836 10.1.1.12 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Glyco_hydro_16,XET_C 0.53 47.0 3.87e-01 100.0% 80.7%
4948088 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 3.94e-01 85.0% 91.4%
3575359 11.1.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Filamin 0.53 31.0 3.43e-01 82.1% 71.8%
3178885 10.1.1.16 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Peptidase_A4 0.53 39.0 3.52e-01 80.0% 90.0%
5032655 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 42.0 3.76e-01 85.0% 98.5%
3458655 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.52 38.0 4.30e-01 82.1% 99.1%
3895724 5087.2.1.2 ↗ beta meanders › Lipovitellin-phosvitin complex › Lipovitellin LV-1N › Lipovitellin LV-1N › PF29934 0.52 40.0 3.23e-01 81.4% 96.4%
4029291 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 40.0 4.02e-01 85.7% 80.7%
4932238 512.1.1.1 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.51 35.0 3.08e-01 70.0% 86.3%
4095676 9.3.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Quinohemoprotein amine dehydrogenase A chain, domain 3-like › Quinohemoprotein amine dehydrogenase A chain, domain 3-like 0.51 38.0 3.51e-01 77.1% 92.0%
D3 high residues 655-758
PDB
D4 medium residues 165-300
PDB
Domain cluster: rep: NC_013651.1__YP_003347940.1__VN4_40__00040__D150-255
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07484.18 best Collar 33.7 4.00e-08 25.0% 61.4%