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NC_041976.1__YP_009606509.1__FDI01_gp082__00082

Bact-Vir

NC_041976.1__YP_009606509.1__FDI01_gp082__00082

Identity

Accession:
NC_041976 ↗
Kingdom:
phage

Quality

93.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Jimmervirus› Brevibacillus_phage_Jimmer2

TaxID: 1296658

Cluster

View cluster (42 members)

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 6-58
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2digA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.72 56.0 5.21e-01 100.0% 67.6%
3lx7A01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 52.0 5.50e-01 100.0% 95.7%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 58.0 5.59e-01 100.0% 83.9%
2i0nA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 58.0 5.71e-01 98.1% 100.0%
2ct4A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 58.0 5.36e-01 100.0% 85.7%
2d9tA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 52.0 5.36e-01 100.0% 95.9%
1y0mA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.65 55.0 5.37e-01 100.0% 95.1%
1vq8T00 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.64 56.0 4.34e-01 100.0% 47.9%
1mhnA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 52.0 5.04e-01 96.2% 83.1%
2eqmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 52.0 5.22e-01 100.0% 94.3%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 50.0 4.78e-01 100.0% 74.2%
5ycqA00 2.30.30.390 Mainly Beta › Roll › SH3 type barrels. › Hemimethylated DNA-binding domain 0.63 54.0 4.83e-01 100.0% 67.5%
4a4kA02 2.30.30.1160 Mainly Beta › Roll › SH3 type barrels. › 0.63 54.0 4.11e-01 100.0% 65.4%
4z88A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.63 52.0 4.99e-01 98.1% 100.0%
4x9cD00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.62 45.0 4.45e-01 100.0% 73.3%
2haxA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 40.0 4.25e-01 81.1% 81.4%
2ox7A01 2.30.30.310 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.61 51.0 4.88e-01 94.3% 98.4%
6bioA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.61 49.0 4.81e-01 90.6% 100.0%
2egeA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.60 51.0 4.62e-01 100.0% 85.3%
3b79A00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.60 53.0 4.02e-01 100.0% 45.6%
2wfwB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 47.0 4.45e-01 90.6% 95.5%
4gnxC03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 39.0 2.77e-01 100.0% 20.2%
3zuaA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.59 51.0 3.86e-01 100.0% 42.7%
5x68A00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 50.0 3.06e-01 100.0% 42.2%
4a53A01 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.57 48.0 4.61e-01 100.0% 83.9%
2j5uA03 2.40.10.350 Mainly Beta › Beta Barrel › Thrombin, subunit H › Rod shape-determining protein MreC, domain 2 0.57 42.0 3.76e-01 83.0% 98.8%
3dlbB03 2.170.260.50 Mainly Beta › Beta Complex › paz domain › 0.56 47.0 4.07e-01 98.1% 86.2%
1y71A00 2.30.30.430 Mainly Beta › Roll › SH3 type barrels. › Kinase associated protein B domain 0.56 46.0 3.80e-01 100.0% 52.3%
2bwnB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.56 40.0 2.93e-01 77.4% 64.2%
6e55A01 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.53 43.0 4.03e-01 100.0% 91.9%
3e8lC00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.52 42.0 3.11e-01 100.0% 89.8%
2dgyA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 41.0 3.74e-01 94.3% 86.1%
2hbpA00 2.30.30.700 Mainly Beta › Roll › SH3 type barrels. › SLA1 homology domain 1 0.51 42.0 4.02e-01 100.0% 81.8%
3gs9A01 6.20.110.10 Special › Other non-globular › Thrombin, subunit H › 0.51 39.0 3.56e-01 90.6% 79.7%
3pubA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.51 42.0 3.12e-01 100.0% 93.2%
3hrsA02 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.51 41.0 3.81e-01 100.0% 88.2%
4j27A02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.50 36.0 3.11e-01 100.0% 47.2%
ECOD (62)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032123 4112.1.1.1 ↗ beta duplicates or obligate multimers › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX, N-terminal domain-like › YopX 0.90 66.0 6.31e-01 100.0% 68.3%
4668201 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.79 58.0 5.96e-01 96.2% 84.0%
4169657 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.76 57.0 5.86e-01 96.2% 86.0%
4252943 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.76 56.0 5.80e-01 98.1% 86.0%
4534931 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.76 57.0 5.13e-01 100.0% 58.7%
4583465 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.75 55.0 5.65e-01 96.2% 84.0%
3675341 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.75 58.0 5.76e-01 100.0% 81.8%
3436022 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.75 58.0 5.75e-01 100.0% 81.8%
4585317 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.73 55.0 5.51e-01 100.0% 80.0%
3590784 4.1.1.297 ↗ beta barrels › SH3 › SH3 › SH3 › YajC 0.73 55.0 5.19e-01 100.0% 67.7%
4053957 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.73 55.0 5.63e-01 100.0% 88.0%
4336500 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.72 54.0 5.41e-01 100.0% 80.0%
4170351 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.72 53.0 4.77e-01 98.1% 57.3%
4995901 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 54.0 5.40e-01 100.0% 80.0%
4665407 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.72 53.0 5.43e-01 100.0% 86.0%
4938828 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 58.0 5.56e-01 98.1% 78.3%
4116754 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.72 52.0 5.49e-01 96.2% 91.1%
3486496 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 57.0 5.69e-01 98.1% 85.5%
4432330 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.71 53.0 5.41e-01 98.1% 86.0%
4058919 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.71 52.0 5.33e-01 98.1% 86.0%
4508412 4.1.1.437 ↗ beta barrels › SH3 › SH3 › SH3 › PF29224 0.70 63.0 6.04e-01 100.0% 88.3%
4998870 4.1.1.483 ↗ beta barrels › SH3 › SH3 › SH3 › RRXRR 0.70 53.0 4.57e-01 100.0% 51.8%
4385345 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.70 51.0 5.27e-01 100.0% 86.0%
3476178 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 58.0 4.45e-01 100.0% 40.8%
4025326 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 55.0 5.09e-01 100.0% 68.6%
4421229 4.1.1.7 ↗ beta barrels › SH3 › SH3 › SH3 › KOW,ribosomal_L24 0.69 60.0 4.85e-01 100.0% 93.2%
3798859 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.68 53.0 4.50e-01 96.2% 51.1%
4516378 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.68 52.0 4.78e-01 100.0% 64.3%
4627221 4.1.1.175 ↗ beta barrels › SH3 › SH3 › SH3 › MSSS 0.68 53.0 5.00e-01 100.0% 70.8%
3385958 4.1.1.7 ↗ beta barrels › SH3 › SH3 › SH3 › KOW,ribosomal_L24 0.68 58.0 5.36e-01 98.1% 92.9%
3833030 4.1.1.187 ↗ beta barrels › SH3 › SH3 › SH3 › DIRP 0.67 53.0 3.96e-01 100.0% 34.8%
3476478 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 51.0 4.31e-01 98.1% 48.4%
4110610 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 51.0 3.60e-01 94.3% 25.4%
4033299 4.1.1.375 ↗ beta barrels › SH3 › SH3 › SH3 › PF28472 0.66 46.0 3.94e-01 94.3% 43.2%
3022070 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.65 54.0 4.28e-01 96.2% 68.4%
4420340 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 54.0 5.21e-01 100.0% 85.0%
4061621 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 53.0 3.71e-01 100.0% 26.2%
3229184 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 54.0 4.68e-01 96.2% 90.6%
3604145 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 49.0 4.74e-01 100.0% 75.0%
3483375 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 54.0 4.89e-01 100.0% 88.0%
3421158 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 52.0 5.12e-01 100.0% 86.7%
4571610 4.1.1.245 ↗ beta barrels › SH3 › SH3 › SH3 › SspH 0.63 53.0 5.14e-01 96.2% 84.7%
4953054 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 48.0 4.34e-01 100.0% 60.0%
4020558 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 54.0 5.08e-01 100.0% 87.7%
3174977 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.62 54.0 4.52e-01 100.0% 82.1%
4985969 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 47.0 4.56e-01 100.0% 75.0%
3785385 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 54.0 4.55e-01 100.0% 87.8%
146236 4.1.1.51 ↗ beta barrels › SH3 › SH3 › SH3 › SGF29_Tudor 0.62 52.0 4.26e-01 100.0% 51.9%
4532614 2.1.1.70 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Prot_ATP_ID_OB_C 0.61 49.0 4.63e-01 90.6% 100.0%
4010317 4.1.1.395 ↗ beta barrels › SH3 › SH3 › SH3 › PF27398 0.61 47.0 4.51e-01 100.0% 73.8%
4048663 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.60 45.0 4.79e-01 100.0% 97.8%
3609116 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 47.0 3.78e-01 100.0% 41.9%
4936291 4.1.1.487 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7205 0.59 45.0 4.34e-01 100.0% 72.3%
3719595 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 49.0 4.81e-01 100.0% 90.0%
3511278 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 45.0 4.25e-01 100.0% 68.6%
3575906 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 51.0 3.67e-01 100.0% 65.2%
4863931 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 48.0 4.55e-01 100.0% 82.1%
4998113 4.1.1.28 ↗ beta barrels › SH3 › SH3 › SH3 › BPL_C 0.58 43.0 4.50e-01 94.3% 100.0%
3764000 219.1.1.78 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Guanylate_cyc_2 0.58 48.0 3.98e-01 100.0% 70.5%
4187800 4.1.1.39 ↗ beta barrels › SH3 › SH3 › SH3 › SHD1 0.56 46.0 4.53e-01 98.1% 86.7%
5078464 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 40.0 4.13e-01 94.3% 95.6%
4991248 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.51 40.0 2.77e-01 90.6% 38.0%
D2 high residues 60-157
PDB
Domain cluster: rep: IMGVR_UViG_3300029822_000038-3300029822-Ga0134854_100084421__D82-168
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF09643.16 best YopX 46.5 5.00e-12 95.9% 53.1%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2p84A02 2.30.30.290 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.90 60.0 6.94e-01 100.0% 91.8%
5ycqA00 2.30.30.390 Mainly Beta › Roll › SH3 type barrels. › Hemimethylated DNA-binding domain 0.64 43.0 4.81e-01 100.0% 87.0%
3vpbE00 2.20.28.160 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.58 30.0 4.00e-01 99.0% 91.1%
1wgsA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.55 36.0 3.29e-01 86.7% 49.6%
6oqrA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.51 35.0 3.69e-01 90.8% 77.8%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4024913 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 39.0 4.72e-01 98.0% 84.6%
3296864 4.1.1.236 ↗ beta barrels › SH3 › SH3 › SH3 › KOWx_SPT5 0.64 38.0 4.72e-01 91.8% 96.7%
3188574 9.4.1.0 ↗ beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains 0.60 39.0 4.57e-01 95.9% 98.5%
3238955 4.1.1.377 ↗ beta barrels › SH3 › SH3 › SH3 › MSL3_chromo-like 0.60 38.0 4.20e-01 90.8% 80.0%
3411858 4.1.1.456 ↗ beta barrels › SH3 › SH3 › SH3 › BAH, BAHCC1-like_Tudor, SH3_TNRC18 0.59 42.0 2.77e-01 84.7% 17.4%
3388362 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 43.0 2.57e-01 78.6% 10.9%
3582876 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.57 38.0 3.71e-01 90.8% 61.9%
3290564 4.1.1.292 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_Rv2311 0.57 44.0 4.66e-01 90.8% 88.9%
3585538 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.56 37.0 3.71e-01 90.8% 65.0%
3768116 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.55 38.0 2.95e-01 70.4% 58.1%
3736411 4.1.1.246 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_Coilin 0.54 43.0 4.53e-01 87.8% 97.6%
4111597 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.52 34.0 4.04e-01 87.8% 100.0%