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NC_020868.1__YP_007676542.1__VPMG_00052__00052

Bact-Vir

NC_020868.1__YP_007676542.1__VPMG_00052__00052

Identity

Accession:
NC_020868 ↗
Kingdom:
phage

Quality

67.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Stoningtonvirus› Vibrio_phage_VBP32

TaxID: 754072

Cluster

View cluster (2 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 12-71
PDB
Domain cluster: rep: MZ447858.1__UAW01180.1__X__00073__D5-61
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1b34B00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.71 57.0 5.32e-01 100.0% 71.6%
2do3A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.68 50.0 5.33e-01 100.0% 94.1%
4f7uG00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.67 58.0 5.58e-01 100.0% 85.3%
4c92B00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.67 59.0 4.96e-01 100.0% 57.1%
1ljoA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.67 58.0 5.42e-01 100.0% 78.7%
4c92F00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.66 58.0 5.39e-01 100.0% 80.5%
5ycqA00 2.30.30.390 Mainly Beta › Roll › SH3 type barrels. › Hemimethylated DNA-binding domain 0.66 50.0 4.71e-01 100.0% 66.2%
2fb7A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.65 57.0 5.22e-01 100.0% 85.0%
3c4sA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 51.0 5.23e-01 100.0% 93.0%
2kwbA00 2.170.150.10 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A 0.63 54.0 3.90e-01 100.0% 98.9%
3goxA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.62 47.0 4.94e-01 96.7% 98.0%
3kulA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.62 45.0 4.03e-01 78.3% 89.9%
2mysA01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.62 45.0 4.89e-01 96.7% 100.0%
1jb0E00 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.61 52.0 4.99e-01 98.3% 94.2%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.61 52.0 5.18e-01 100.0% 98.4%
3h3eA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.60 41.0 2.73e-01 71.7% 30.1%
1y0mA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.60 51.0 5.14e-01 100.0% 96.7%
1v1cA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.59 50.0 4.88e-01 100.0% 97.1%
6ei1A01 3.90.70.130 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.59 51.0 3.42e-01 100.0% 27.8%
3vygD00 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.59 49.0 4.09e-01 100.0% 71.4%
4iimA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.59 49.0 5.08e-01 100.0% 100.0%
3ci0J02 2.10.70.20 Mainly Beta › Ribbon › Complement Module; domain 1 › gspk-gspi-gspj complex like domains 0.59 31.0 3.32e-01 100.0% 54.0%
1lckA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 50.0 5.06e-01 100.0% 100.0%
8gz3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.58 44.0 3.89e-01 85.0% 92.5%
6f2mA02 2.40.30.290 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.57 41.0 3.66e-01 96.7% 52.9%
1x6bA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.57 49.0 4.83e-01 100.0% 93.8%
1y71A00 2.30.30.430 Mainly Beta › Roll › SH3 type barrels. › Kinase associated protein B domain 0.56 47.0 3.99e-01 100.0% 55.0%
6krwA01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.55 41.0 2.65e-01 80.0% 22.6%
6i4pA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 48.0 3.78e-01 100.0% 98.4%
1p6vA00 2.40.280.10 Mainly Beta › Beta Barrel › Small Protein B; Chain: A; › Small protein B 0.52 43.0 3.53e-01 98.3% 88.8%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 44.0 4.18e-01 98.3% 81.9%
2ibgA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 38.0 3.24e-01 80.0% 87.3%
7zxkB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 37.0 3.27e-01 78.3% 94.6%
4gioA00 2.60.40.3230 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 43.0 3.74e-01 96.7% 92.7%
1a5iA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 40.0 3.30e-01 90.0% 74.6%
3lb6D02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 3.18e-01 76.7% 92.4%
2v72A00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 35.0 2.85e-01 75.0% 89.1%
4js8A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 38.0 3.46e-01 86.7% 92.1%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4936291 4.1.1.487 ↗ beta barrels › SH3 › SH3 › SH3 › DUF7205 0.72 56.0 5.51e-01 100.0% 78.5%
4010995 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.72 65.0 6.00e-01 100.0% 88.0%
3398219 4.1.1.89 ↗ beta barrels › SH3 › SH3 › SH3 › SM-ATX 0.71 63.0 5.43e-01 100.0% 64.2%
4642857 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 63.0 5.74e-01 100.0% 81.2%
3771732 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.70 35.0 4.17e-01 70.0% 70.0%
4349149 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 59.0 5.20e-01 95.0% 82.2%
4019995 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.69 60.0 4.96e-01 100.0% 73.6%
4937692 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.69 62.0 6.08e-01 100.0% 93.8%
3820621 4.1.1.81 ↗ beta barrels › SH3 › SH3 › SH3 › LSM14 0.68 60.0 5.45e-01 100.0% 86.3%
4387111 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.67 59.0 5.39e-01 100.0% 82.5%
478 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.67 58.0 5.42e-01 100.0% 78.7%
4932286 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.67 57.0 5.43e-01 100.0% 80.8%
3999729 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.66 58.0 5.13e-01 100.0% 67.4%
3258918 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.66 58.0 4.87e-01 100.0% 57.1%
3270749 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.66 57.0 5.25e-01 100.0% 77.5%
3583597 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.64 47.0 4.22e-01 100.0% 54.4%
1549365 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.63 55.0 4.99e-01 100.0% 73.5%
4508544 4.1.1.27 ↗ beta barrels › SH3 › SH3 › SH3 › NHase_beta_C 0.63 55.0 4.60e-01 100.0% 82.9%
3710595 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.62 54.0 4.50e-01 100.0% 94.5%
3213653 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.62 50.0 4.69e-01 96.7% 91.3%
3853638 4.8.1.9 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Chromo_2 0.61 51.0 4.69e-01 93.3% 80.0%
3592075 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 52.0 4.74e-01 100.0% 81.2%
3323530 4.1.1.118 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_15 0.61 51.0 5.03e-01 100.0% 89.2%
3908017 4.1.1.253 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4537 0.60 51.0 4.73e-01 100.0% 78.8%
3507588 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 47.0 4.90e-01 100.0% 94.5%
3514522 4.1.1.3 ↗ beta barrels › SH3 › SH3 › SH3 › KOW 0.60 52.0 4.92e-01 100.0% 92.0%
3995290 4.1.1.332 ↗ beta barrels › SH3 › SH3 › SH3 › Peptidase_C1 0.60 51.0 4.28e-01 100.0% 79.1%
3977478 4056.1.1.9 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Phage_portal_2 0.60 52.0 4.45e-01 100.0% 99.0%
4020558 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 51.0 5.06e-01 100.0% 90.8%
3925589 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.60 51.0 4.92e-01 98.3% 91.4%
3859965 4.1.1.107 ↗ beta barrels › SH3 › SH3 › SH3 › XRN1_D1 0.59 51.0 3.58e-01 96.7% 65.3%
3501337 4.1.1.169 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4819 0.59 51.0 4.72e-01 100.0% 83.7%
3385013 109.21.1.4 ↗ alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Sec16_C,Sec16 0.59 41.0 2.44e-01 71.7% 10.5%
3372822 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 50.0 4.70e-01 100.0% 77.3%
4014881 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 47.0 4.71e-01 95.0% 90.0%
4910146 4056.1.1.3 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Portal_Gp20 0.59 49.0 4.39e-01 100.0% 75.0%
3315471 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.58 45.0 4.10e-01 96.7% 62.4%
3721465 708.1.2.6 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › GFA 0.58 49.0 3.77e-01 100.0% 65.3%
3495148 219.1.1.41 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C78 0.58 47.0 3.63e-01 100.0% 43.0%
3263342 109.21.1.4 ↗ alpha superhelices › Repetitive alpha hairpins › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain › Sec16_C,Sec16 0.58 39.0 2.35e-01 70.0% 11.2%
3789132 4.1.1.146 ↗ beta barrels › SH3 › SH3 › SH3 › Ribosomal_uL24m-like 0.58 49.0 3.41e-01 100.0% 30.2%
4419746 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.57 46.0 2.83e-01 98.3% 36.7%
2725406 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.57 48.0 4.45e-01 100.0% 76.8%
3923813 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 47.0 4.64e-01 96.7% 89.2%
4034031 4056.1.1.0 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.56 47.0 4.68e-01 100.0% 95.4%
552 4.1.1.61 ↗ beta barrels › SH3 › SH3 › SH3 › KapB 0.56 47.0 3.99e-01 100.0% 55.0%
4931822 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 39.0 3.94e-01 100.0% 76.9%
3407443 379.1.1.3 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.53 42.0 4.04e-01 90.0% 90.0%
3212772 4.8.1.6 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Tudor-knot 0.53 42.0 4.06e-01 100.0% 77.0%
3236073 4.8.1.10 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MSL3_chromo-like 0.52 41.0 3.96e-01 100.0% 76.0%
3704651 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.52 42.0 2.90e-01 91.7% 36.1%
4601389 2.21.1.1 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SmpB 0.52 42.0 3.34e-01 98.3% 76.4%
3507571 5.1.4.47 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PHTB1_N 0.52 43.0 2.64e-01 93.3% 19.5%
3626345 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.54e-01 96.7% 69.1%
3238955 4.1.1.377 ↗ beta barrels › SH3 › SH3 › SH3 › MSL3_chromo-like 0.50 39.0 3.72e-01 98.3% 71.2%