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MG603697.1__AUG88369.1__VPR_005__00005

Bact-Vir

MG603697.1__AUG88369.1__VPR_005__00005

Identity

Accession:
MG603697 ↗
Kingdom:
phage

Quality

79.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Grimontviridae› Dalianvirus› Vibrio_phage_Vp_R1

TaxID: 2059867

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 7-53
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5cz2C00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.85 69.0 4.68e-01 87.2% 27.6%
2lefA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.83 67.0 5.52e-01 91.5% 54.7%
2co9A00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.80 65.0 5.05e-01 91.5% 46.1%
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.79 63.0 6.13e-01 89.4% 86.8%
3tmmA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.79 63.0 4.87e-01 91.5% 43.1%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.78 63.0 5.36e-01 91.5% 59.5%
1v63A00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.76 64.0 4.99e-01 97.9% 44.6%
3fghA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.76 59.0 5.34e-01 100.0% 62.7%
1v64A00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.74 60.0 4.68e-01 100.0% 40.7%
2cs1A00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.70 58.0 4.82e-01 100.0% 60.9%
2x4hA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 54.0 3.98e-01 100.0% 32.6%
1qrvA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.66 55.0 4.92e-01 100.0% 65.8%
3e3vA03 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 50.0 4.79e-01 83.0% 71.4%
6el2B01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.66 40.0 4.03e-01 93.6% 59.2%
1sr9B03 1.10.1220.20 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › 0.66 41.0 4.22e-01 80.9% 65.2%
4jykA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.65 40.0 3.75e-01 93.6% 50.0%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.64 47.0 3.52e-01 85.1% 70.3%
2oq1A02 1.10.930.10 Mainly Alpha › Orthogonal Bundle › Syk Kinase; Chain A, domain 2 › Syk Kinase; Chain A, domain 2 0.63 50.0 5.06e-01 97.9% 100.0%
5zr4A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.62 52.0 4.18e-01 100.0% 62.7%
2xheA04 1.25.40.60 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.62 43.0 3.16e-01 78.7% 28.8%
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.60 47.0 3.54e-01 87.2% 79.3%
3w04A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.58 42.0 2.66e-01 80.9% 13.6%
2l09A01 1.10.8.550 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B 0.57 41.0 4.02e-01 78.7% 71.2%
3vglA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 48.0 3.31e-01 100.0% 60.7%
6ddnA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.57 47.0 3.39e-01 95.7% 43.4%
1l1lA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.54 45.0 2.62e-01 100.0% 11.4%
2zt5A02 3.30.40.230 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.53 41.0 3.53e-01 91.5% 85.7%
3afhA04 1.10.8.70 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 0.52 39.0 3.90e-01 85.1% 84.0%
1z9eA00 1.20.930.10 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 0.52 41.0 3.42e-01 87.2% 50.6%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3477670 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.86 76.0 6.86e-01 100.0% 86.2%
3916833 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.85 69.0 5.81e-01 91.5% 58.7%
3558741 376.1.3.80 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › HMG_box 0.83 65.0 6.64e-01 87.2% 100.0%
3538509 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.83 68.0 5.23e-01 91.5% 44.8%
3470186 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.83 67.0 5.46e-01 91.5% 52.2%
3176953 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.81 66.0 5.82e-01 91.5% 67.1%
3506153 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.81 67.0 5.51e-01 91.5% 56.6%
3605979 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.81 68.0 6.14e-01 95.7% 72.3%
4027821 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.81 71.0 6.35e-01 97.9% 76.9%
4344838 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.80 64.0 5.47e-01 91.5% 58.7%
3471257 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.80 71.0 5.35e-01 100.0% 45.5%
3416236 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.80 65.0 6.68e-01 91.5% 93.3%
3781940 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.79 68.0 5.35e-01 97.9% 48.0%
3724977 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.79 63.0 5.09e-01 91.5% 49.5%
3627090 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.79 69.0 6.04e-01 97.9% 71.4%
3239423 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.79 65.0 6.62e-01 100.0% 95.6%
3738741 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.79 68.0 5.78e-01 100.0% 72.5%
3238821 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.78 69.0 5.60e-01 97.9% 57.6%
3174920 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.78 63.0 5.25e-01 91.5% 61.2%
3893243 190.1.1.9 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_WDHD1 0.78 67.0 6.40e-01 97.9% 87.3%
3410813 190.1.1.5 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › Protamine_like 0.78 66.0 5.89e-01 97.9% 67.7%
3620454 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.78 62.0 4.40e-01 91.5% 31.3%
3757366 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.77 62.0 5.22e-01 91.5% 60.0%
3597181 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.76 65.0 5.58e-01 97.9% 60.0%
4015915 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.76 67.0 5.61e-01 100.0% 67.5%
3410442 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.76 67.0 4.88e-01 100.0% 37.6%
3419147 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.75 64.0 5.22e-01 100.0% 51.1%
3323413 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.75 64.0 5.31e-01 100.0% 54.1%
3712152 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.75 64.0 6.16e-01 97.9% 89.1%
3878202 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.75 65.0 5.38e-01 100.0% 58.8%
3174373 101.1.2.780 ↗ alpha arrays › HTH › HTH › winged helix domain › PF31199 0.74 54.0 4.58e-01 76.6% 49.3%
2426 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.74 60.0 4.68e-01 100.0% 40.7%
3414570 190.1.1.5 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › Protamine_like 0.74 64.0 5.55e-01 100.0% 62.7%
3503648 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.74 65.0 6.01e-01 100.0% 78.3%
3404420 190.1.1.5 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › Protamine_like 0.74 61.0 5.72e-01 100.0% 75.0%
3398172 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.74 64.0 4.97e-01 100.0% 44.8%
4102250 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.74 64.0 5.43e-01 100.0% 58.7%
3379763 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.73 62.0 5.29e-01 100.0% 58.7%
3402349 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.72 62.0 5.77e-01 100.0% 78.3%
3593421 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.72 61.0 5.04e-01 100.0% 52.2%
3171915 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.72 62.0 5.15e-01 100.0% 55.3%
3546996 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.71 60.0 5.37e-01 100.0% 71.4%
3715403 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.71 58.0 5.53e-01 100.0% 85.0%
4079824 190.1.1.3 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box_2 0.70 58.0 5.30e-01 97.9% 72.3%
4453675 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.69 57.0 5.25e-01 97.9% 72.3%
3355337 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.68 59.0 5.23e-01 100.0% 74.3%
3711589 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.67 58.0 5.04e-01 100.0% 62.7%
3497163 190.1.1.0 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box 0.67 55.0 4.78e-01 100.0% 62.5%
3699905 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.64 55.0 4.47e-01 100.0% 53.7%
3507860 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 43.0 3.53e-01 87.2% 41.9%
4640327 101.1.2.25 ↗ alpha arrays › HTH › HTH › winged helix domain › FUR 0.56 43.0 3.14e-01 80.9% 43.8%