←Back to structures

NC_041862.1__YP_009592674.1__FDG78_gp122__00145

Bact-Vir

NC_041862.1__YP_009592674.1__FDG78_gp122__00145

Identity

Accession:
NC_041862 ↗
Kingdom:
phage

Quality

89.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Pecentumvirus› Listeria_phage_LP-064

TaxID: 1458853

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 4-101
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xk0A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.76 40.0 4.71e-01 89.8% 73.9%
2eqkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 42.0 4.88e-01 86.7% 76.7%
1khcA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 45.0 5.40e-01 94.9% 98.5%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 37.0 4.44e-01 92.9% 80.3%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 39.0 4.41e-01 86.7% 75.3%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 35.0 4.25e-01 80.6% 76.9%
2e6nA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 38.0 3.80e-01 87.8% 53.8%
4ii1A02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 37.0 4.67e-01 86.7% 100.0%
2vb6A01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.62 31.0 4.01e-01 78.6% 87.0%
4ld6A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.62 43.0 4.08e-01 95.9% 60.7%
2wdqA04 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.61 21.0 3.17e-01 88.8% 70.7%
4m7dA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.61 38.0 4.59e-01 89.8% 96.9%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.61 36.0 4.43e-01 94.9% 98.3%
2ldmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.59 32.0 4.09e-01 82.7% 96.2%
2greF02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.58 37.0 4.09e-01 91.8% 80.8%
3kl9A02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.56 36.0 4.07e-01 91.8% 85.1%
2e12A00 2.30.30.720 Mainly Beta › Roll › SH3 type barrels. › Protein of unknown function (DUF3247) 0.56 40.0 4.08e-01 92.9% 77.4%
1t6eX01 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.55 46.0 3.85e-01 93.9% 55.2%
1yloE02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.54 36.0 3.93e-01 91.8% 81.0%
3mb5A01 3.10.330.20 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.54 32.0 4.04e-01 82.7% 96.8%
1boqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 40.0 3.98e-01 82.7% 90.7%
4lduA03 2.30.30.1040 Mainly Beta › Roll › SH3 type barrels. › 0.53 36.0 4.06e-01 89.8% 100.0%
4zciA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 35.0 3.53e-01 91.8% 67.3%
1ffyA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 41.0 2.77e-01 87.8% 50.4%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 35.0 3.42e-01 92.9% 63.0%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.50 38.0 3.74e-01 81.6% 95.3%
6iccA02 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.50 28.0 2.96e-01 98.0% 58.1%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3913687 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.71 39.0 4.10e-01 86.7% 58.9%
3928711 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 39.0 4.18e-01 88.8% 67.1%
3877478 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.67 38.0 3.80e-01 86.7% 55.0%
3594795 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 42.0 4.16e-01 90.8% 61.0%
3229356 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 45.0 4.38e-01 83.7% 69.5%
3619813 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.61 38.0 3.60e-01 87.8% 52.2%
3558926 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.61 36.0 3.78e-01 86.7% 63.3%
3501699 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 36.0 3.97e-01 87.8% 72.5%
4055256 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.59 35.0 3.64e-01 87.8% 63.3%
3788285 395.1.1.4 ↗ few secondary structure elements › Midkine-related › Midkine-related › Midkine-related › Flocculin_t3 0.58 26.0 3.50e-01 81.6% 82.0%
3723834 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 38.0 4.45e-01 82.7% 95.7%
3210702 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.57 43.0 3.19e-01 82.7% 42.9%
3427504 4.1.1.150 ↗ beta barrels › SH3 › SH3 › SH3 › DUF3123 0.56 38.0 4.51e-01 81.6% 98.6%
3186280 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.56 42.0 3.27e-01 79.6% 88.4%
3598220 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 42.0 3.71e-01 80.6% 83.6%
3198319 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.54 40.0 2.84e-01 79.6% 31.6%
3204035 1.1.17.4 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Peptidase_S64 0.53 41.0 2.87e-01 83.7% 34.4%
3703449 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.53 37.0 4.08e-01 98.0% 96.0%
4165709 1.1.7.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › GTP_EFTU_D2 0.53 36.0 3.51e-01 91.8% 64.8%
3881111 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.53 32.0 3.34e-01 86.7% 64.4%
3257612 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.52 42.0 3.35e-01 86.7% 81.5%
3919375 77.2.1.1 ↗ beta meanders › open-sided beta-meander › Histone H3 K4-specific methyltransferase SET7/9-N › Histone H3 K4-specific methyltransferase SET7/9-N › MORN 0.52 29.0 2.89e-01 78.6% 51.0%
3575485 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 39.0 3.74e-01 87.8% 70.0%