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NC_016567.1__YP_004957547.1__VPEG_00054__00054

Bact-Vir

NC_016567.1__YP_004957547.1__VPEG_00054__00054

Identity

Accession:
NC_016567 ↗
Kingdom:
phage

Quality

88.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_SIO-2

TaxID: 700512

Cluster

View cluster (4 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 22-97
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tw6D02 3.10.600.10 Alpha Beta › Roll › pyruvate carboxylase f1077a mutant fold › pyruvate carboxylase f1077a mutant domain 0.72 45.0 4.57e-01 77.6% 63.2%
3bg3A01 3.10.600.10 Alpha Beta › Roll › pyruvate carboxylase f1077a mutant fold › pyruvate carboxylase f1077a mutant domain 0.70 44.0 3.97e-01 77.6% 47.5%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 48.0 5.21e-01 100.0% 87.7%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.67 43.0 4.84e-01 94.7% 84.7%
2gfaB01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 48.0 5.19e-01 100.0% 93.5%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.65 50.0 4.49e-01 82.9% 86.9%
1boqA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.62 44.0 3.97e-01 100.0% 53.3%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.62 48.0 4.25e-01 100.0% 58.3%
1hpgA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.61 44.0 4.09e-01 100.0% 58.6%
1vloA04 2.40.30.110 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Aminomethyltransferase beta-barrel domains 0.61 40.0 3.82e-01 100.0% 57.1%
4adiA01 2.60.98.30 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › Rubella membrane glycoprotein E1, domain 1 0.58 47.0 4.71e-01 89.5% 85.7%
3obyA01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.57 41.0 3.69e-01 100.0% 53.2%
2qi2A01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.57 41.0 3.77e-01 100.0% 56.7%
4fvdA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.56 41.0 3.88e-01 100.0% 64.9%
3eb8B01 3.10.450.460 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › EspG protein, N-terminal domain 0.56 31.0 3.39e-01 80.3% 67.2%
4chmB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 49.0 4.19e-01 100.0% 74.2%
2hrvA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.55 40.0 3.77e-01 78.9% 84.2%
4chjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 48.0 4.13e-01 100.0% 66.1%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 41.0 3.47e-01 81.6% 78.0%
3pg6B00 3.30.390.130 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.54 41.0 3.46e-01 82.9% 100.0%
4epcA02 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.54 44.0 4.57e-01 97.4% 97.2%
2budA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.53 44.0 4.15e-01 92.1% 78.3%
2odpA03 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 46.0 3.67e-01 100.0% 47.3%
1m5q101 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.53 38.0 4.00e-01 100.0% 86.8%
4c92G00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.52 39.0 3.93e-01 100.0% 81.3%
4ld6A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 47.0 4.04e-01 100.0% 73.5%
4zciA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 38.0 3.52e-01 100.0% 60.4%
3q5zA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 44.0 3.81e-01 97.4% 70.2%
4c92B00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.51 41.0 3.72e-01 100.0% 63.8%
1vw4F01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.51 37.0 3.51e-01 78.9% 82.8%
2ichA01 2.40.370.10 Mainly Beta › Beta Barrel › AttH-like fold › AttH-like domain 0.50 44.0 3.41e-01 100.0% 86.6%
2xzlA02 2.40.30.230 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.50 34.0 3.37e-01 100.0% 67.1%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3396951 4.1.1.330 ↗ beta barrels › SH3 › SH3 › SH3 › SH3-B_UBE2O, SH3-C_UBE2O 0.67 53.0 3.32e-01 100.0% 16.2%
4083044 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.66 42.0 4.31e-01 100.0% 66.7%
3967986 4.7.1.2 ↗ beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › ROF 0.66 51.0 5.07e-01 100.0% 78.8%
3203392 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.65 50.0 3.45e-01 81.6% 40.0%
3199494 1.1.17.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.63 47.0 3.37e-01 78.9% 43.2%
145843 4.1.1.12 ↗ beta barrels › SH3 › SH3 › SH3 › PWWP 0.62 48.0 4.25e-01 100.0% 58.3%
3380294 9.1.1.21 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Cyclin_D1_bind 0.61 54.0 4.39e-01 100.0% 97.3%
5028251 5090.1.1.0 ↗ beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.61 49.0 4.37e-01 88.2% 87.3%
159 1.1.8.3 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › GCV_T_C 0.61 40.0 3.84e-01 100.0% 57.8%
4647114 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.61 46.0 3.28e-01 82.9% 38.3%
3226615 4.1.1.389 ↗ beta barrels › SH3 › SH3 › SH3 › PF30352 0.60 45.0 4.20e-01 100.0% 64.2%
3498829 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 48.0 2.95e-01 100.0% 13.9%
3447819 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.59 45.0 4.67e-01 97.4% 88.6%
3253266 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 49.0 4.38e-01 100.0% 66.7%
3390533 4.8.1.19 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › WAC_Acf1_DNA_bd 0.58 49.0 3.82e-01 100.0% 43.8%
4937158 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 36.0 3.93e-01 100.0% 80.0%
3494858 109.4.1.816 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RALGAPB_N 0.57 50.0 2.80e-01 100.0% 8.6%
608 4.23.1.2 ↗ beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.57 41.0 3.77e-01 100.0% 56.7%
3791777 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.55 49.0 4.79e-01 100.0% 88.2%
3467905 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 38.0 4.36e-01 86.8% 100.0%
3888395 4.1.1.18 ↗ beta barrels › SH3 › SH3 › SH3 › CAP_GLY 0.55 51.0 4.91e-01 100.0% 90.5%
3738927 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.55 50.0 4.20e-01 100.0% 73.6%
3489170 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.55 49.0 4.67e-01 100.0% 88.9%
3612351 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 46.0 4.64e-01 98.7% 92.0%
3728169 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.54 49.0 4.20e-01 100.0% 78.3%
3411284 270.1.1.2 ↗ beta barrels › FMT C-terminal domain-like › FMT C-terminal domain-related › FMT C-terminal domain-related › Formyl_trans_C 0.54 37.0 3.32e-01 72.4% 76.4%
3703449 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.53 46.0 4.71e-01 100.0% 96.0%
3490245 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 44.0 4.26e-01 100.0% 81.1%
3175156 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.53 43.0 4.47e-01 97.4% 95.7%
5007131 1.1.7.28 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › HAS-barrel 0.53 43.0 4.05e-01 100.0% 72.6%
3682599 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.52 45.0 2.76e-01 98.7% 57.0%
4299010 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.52 38.0 3.60e-01 100.0% 63.2%
5056723 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.52 42.0 3.95e-01 100.0% 70.5%
3495649 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 46.0 4.48e-01 100.0% 100.0%
3784272 1.1.7.102 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › PF28793 0.52 41.0 3.56e-01 98.7% 55.0%
3851361 4.1.1.78 ↗ beta barrels › SH3 › SH3 › SH3 › TTD 0.51 46.0 4.10e-01 100.0% 71.4%
3366414 1.1.7.19 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › GTP_EFTU_D2 0.51 38.0 3.36e-01 98.7% 53.0%
3648209 3459.1.1.3 ↗ beta sandwiches › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › DUF868 0.51 41.0 3.50e-01 88.2% 96.8%
4964533 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.50 45.0 3.70e-01 100.0% 66.4%
3255737 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.50 43.0 3.77e-01 98.7% 70.0%
3473981 4.1.1.12 ↗ beta barrels › SH3 › SH3 › SH3 › PWWP 0.50 45.0 3.81e-01 100.0% 88.0%
4154903 270.1.1.2 ↗ beta barrels › FMT C-terminal domain-like › FMT C-terminal domain-related › FMT C-terminal domain-related › Formyl_trans_C 0.50 43.0 3.80e-01 96.1% 80.9%
3475919 4.1.1.239 ↗ beta barrels › SH3 › SH3 › SH3 › SH3-B_UBE2O 0.50 45.0 2.95e-01 100.0% 23.4%