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MK820013.2__QDF45987.1__vBVpaPMGD2_48__00048

Bact-Vir

MK820013.2__QDF45987.1__vBVpaPMGD2_48__00048

Identity

Accession:
MK820013 ↗
Kingdom:
phage

Quality

93.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autosignataviridae› Kaohsiungvirus› Vibrio_phage_vB_VpaP_MGD2

TaxID: 2565877

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 13-86
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kheA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.69 44.0 4.18e-01 73.0% 53.9%
2z0qA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.69 51.0 4.27e-01 79.7% 71.9%
2rgnB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.29e-01 79.7% 59.3%
2vrwB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.29e-01 79.7% 58.7%
2cofA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 48.0 4.22e-01 75.7% 67.3%
5xpyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 47.0 4.14e-01 75.7% 61.1%
2yzyA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.64 45.0 3.48e-01 100.0% 33.1%
3fm8D03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 48.0 4.25e-01 79.7% 72.2%
3tfmA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 46.0 4.21e-01 79.7% 79.8%
3ge2A00 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.60 44.0 4.12e-01 97.3% 64.0%
3e5zA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.60 45.0 3.02e-01 81.1% 23.1%
5h4eA02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.57 43.0 3.72e-01 81.1% 52.9%
1p5tA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 51.0 4.50e-01 100.0% 69.8%
6jwfA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.57 47.0 3.06e-01 97.3% 39.7%
7mhuA01 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.56 47.0 3.04e-01 95.9% 27.1%
8hpoK01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 47.0 3.02e-01 100.0% 23.6%
4o9dA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 46.0 2.93e-01 94.6% 25.8%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 42.0 4.40e-01 85.1% 93.9%
3bb7A01 3.90.70.50 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Streptopain (SpeB) 0.55 48.0 3.71e-01 100.0% 86.8%
1v58A01 3.10.450.70 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Disulphide bond isomerase, DsbC/G, N-terminal 0.55 36.0 3.69e-01 98.6% 70.4%
8p2bA01 3.90.1010.20 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.55 40.0 3.90e-01 75.7% 85.0%
1zvfB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 47.0 3.62e-01 97.3% 86.0%
2hzmG01 3.30.310.180 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.53 41.0 3.60e-01 85.1% 62.6%
8oqxA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 36.0 3.18e-01 78.4% 45.6%
3k2zA02 2.10.109.10 Mainly Beta › Ribbon › Umud Fragment, subunit A › Umud Fragment, subunit A 0.53 33.0 2.87e-01 75.7% 37.8%
2j3tC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 45.0 3.65e-01 95.9% 61.0%
4whiA00 2.40.128.600 Mainly Beta › Beta Barrel › Lipocalin › 0.52 41.0 3.76e-01 87.8% 75.5%
1vx7H01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.52 39.0 3.80e-01 82.4% 89.4%
3cueC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 45.0 3.61e-01 95.9% 69.2%
3ga2A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.52 41.0 2.96e-01 97.3% 28.0%
4eqaC00 2.40.128.650 Mainly Beta › Beta Barrel › Lipocalin › 0.52 41.0 3.36e-01 89.2% 52.7%
2w35A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.51 40.0 2.98e-01 95.9% 29.6%
2qzuA02 3.30.1120.10 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.50 35.0 3.34e-01 100.0% 62.4%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3602276 881.4.1.2 ↗ a+b three layers › Mog1p/PsbP-like › C-terminal domain in sigma-E factor regulatory protein rseB › C-terminal domain in sigma-E factor regulatory protein rseB › DUF4367 0.69 47.0 3.86e-01 83.8% 39.3%
3501432 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.67 48.0 4.16e-01 97.3% 50.0%
3905525 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 50.0 4.24e-01 79.7% 61.7%
3916384 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.66 49.0 4.09e-01 79.7% 52.3%
3940203 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.65 49.0 4.42e-01 79.7% 75.0%
1770995 223.2.1.8 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Sybindin 0.64 46.0 3.37e-01 77.0% 35.1%
3627627 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.64 48.0 3.82e-01 79.7% 49.7%
5044703 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 46.0 3.92e-01 78.4% 54.2%
3263180 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 46.0 4.07e-01 79.7% 60.9%
3255030 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.62 46.0 3.90e-01 79.7% 56.0%
3512065 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 43.0 4.54e-01 75.7% 84.6%
3264341 5.1.4.147 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › RMC1_N 0.60 51.0 3.37e-01 97.3% 27.4%
3477246 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.59 53.0 4.23e-01 97.3% 54.3%
3925491 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.59 40.0 2.86e-01 70.3% 56.4%
3234981 633.23.1.4 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.59 46.0 3.43e-01 87.8% 62.4%
4988423 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.59 46.0 4.54e-01 85.1% 78.8%
3899494 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 53.0 4.37e-01 100.0% 63.8%
3864859 633.23.1.4 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.59 43.0 3.16e-01 79.7% 63.6%
3493653 220.1.1.28 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › hSac2 0.58 48.0 3.67e-01 94.6% 51.6%
3610662 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.58 48.0 3.32e-01 93.2% 43.8%
3484274 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 50.0 4.06e-01 97.3% 67.1%
3513739 220.1.1.60 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › ECT2_PH 0.56 48.0 3.74e-01 95.9% 55.8%
1148094 330.12.1.1 ↗ a+b two layers › dsRBD-like › Transcription regulator P7 › Transcription regulator P7 › Xp10_P7 0.56 44.0 4.50e-01 87.8% 100.0%
2832299 5.1.3.26 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_2 0.56 47.0 3.03e-01 95.9% 26.7%
2145749 330.19.1.1 ↗ a+b two layers › dsRBD-like › Anti-CRISPR protein Acr30-35/AcrF1 › Anti-CRISPR protein Acr30-35/AcrF1 › Acr30-35_AcrF1 0.55 47.0 4.66e-01 100.0% 91.3%
3658278 5.1.3.142 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.55 46.0 3.07e-01 95.9% 30.9%
3266642 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.55 47.0 3.77e-01 97.3% 47.7%
3330689 220.1.1.16 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF1681 0.55 47.0 3.78e-01 97.3% 64.7%
1290001 5.1.3.15 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Glu_cyclase_2 0.54 45.0 3.25e-01 95.9% 32.9%
5058066 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.54 37.0 3.23e-01 70.3% 48.7%
4936345 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 35.0 3.64e-01 70.3% 71.4%
3970247 9.11.1.0 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like 0.54 44.0 3.96e-01 93.2% 76.4%
5018346 5.1.3.22 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › GSDH 0.54 44.0 2.94e-01 95.9% 23.1%
3946513 3518.1.1.1 ↗ a+b two layers › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › putative RnfG subunit of electron transport complex › FMN_bind 0.53 39.0 3.62e-01 79.7% 71.6%
3945385 219.1.1.6 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.53 35.0 2.80e-01 97.3% 28.9%
3632963 844.1.1.3 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › DUF6593 0.52 41.0 3.27e-01 87.8% 97.6%
3249763 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 45.0 3.64e-01 97.3% 49.7%
4957228 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.52 37.0 3.14e-01 89.2% 43.1%
1157731 6043.1.1.3 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like › CAP_assoc_N 0.52 32.0 3.17e-01 93.2% 57.0%
4998507 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.51 34.0 3.94e-01 70.3% 94.4%
3617987 4099.1.1.28 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › PF29108 0.51 38.0 3.73e-01 87.8% 74.1%
3956060 77.1.1.0 ↗ beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein 0.51 36.0 2.90e-01 100.0% 36.4%
3458192 5.1.3.142 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.50 40.0 2.80e-01 95.9% 32.9%