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MK937606.1__QDH93071.1__PBI_MARGAERY_14__00013

Bact-Vir

MK937606.1__QDH93071.1__PBI_MARGAERY_14__00013

Identity

Accession:
MK937606 ↗
Kingdom:
phage

Quality

83.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Hodgkinviridae› Margaeryvirus› Microbacterium_phage_Margaery

TaxID: 2591217

Cluster

View cluster (15 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 21-149
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d8lA00 1.10.8.940 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein, phage p2 ORF12 0.66 35.0 4.05e-01 73.6% 71.4%
3bcgA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 43.0 3.66e-01 76.7% 57.5%
6i9kA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.57 40.0 3.03e-01 72.1% 52.6%
7sf7A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.51 36.0 2.88e-01 72.1% 52.4%
6k41R00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 36.0 2.97e-01 74.4% 57.2%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5039757 1075.1.1.19 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane_4 0.68 56.0 4.52e-01 87.6% 75.9%
5021023 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.62 56.0 4.46e-01 97.7% 74.8%
3909178 5001.1.1.11 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_4 0.57 40.0 3.05e-01 72.9% 54.1%
3899064 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.55 38.0 2.95e-01 71.3% 52.8%
3909416 5001.1.1.11 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_4 0.55 45.0 3.35e-01 86.8% 64.9%
None — 0.54 38.0 3.33e-01 72.9% 72.5%
3997005 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.54 38.0 3.15e-01 72.9% 72.2%
3798597 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.54 45.0 3.16e-01 89.1% 72.8%
None — 0.54 45.0 3.38e-01 89.1% 67.2%
3755060 5001.1.1.11 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_4 0.53 44.0 3.32e-01 89.1% 65.3%
3938688 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.52 41.0 3.39e-01 90.7% 45.4%
3907394 5001.1.1.3 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2 0.52 36.0 2.85e-01 71.3% 42.4%
3480353 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.51 42.0 3.30e-01 89.1% 76.1%
D2 high residues 199-289
PDB
Domain cluster: rep: IMGVR_UViG_3300022470_000014-3300022470-Ga0190367_10025133__D1-99
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04233.20 best Phage_Mu_F 29.7 1.30e-06 96.7% 50.9%
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gsaA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.64 42.0 4.74e-01 90.1% 92.3%
3dr4A02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.63 34.0 3.10e-01 97.8% 37.6%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.62 41.0 4.60e-01 84.6% 92.4%
4ipuA00 3.55.40.10 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › minor pseudopilin epsh domain 0.62 51.0 4.52e-01 91.2% 96.4%
3r7wC02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.62 35.0 3.37e-01 91.2% 46.7%
6dgiA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.61 41.0 4.50e-01 90.1% 91.2%
3tiiA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.61 40.0 4.56e-01 91.2% 95.4%
3ethA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.61 37.0 4.29e-01 86.8% 90.3%
5x6vF00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.59 35.0 3.25e-01 83.5% 44.9%
2fp4B02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.56 45.0 4.51e-01 86.8% 92.3%
1ou8A00 2.30.30.220 Mainly Beta › Roll › SH3 type barrels. › SspB-like 0.56 48.0 4.56e-01 95.6% 85.8%
3kalB05 3.30.1490.50 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Glutathione synthase lid domain 0.55 32.0 3.76e-01 85.7% 88.1%
4xmqA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 42.0 3.74e-01 92.3% 99.2%
6mdsA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 41.0 3.55e-01 92.3% 90.2%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3964369 6108.1.1.8 ↗ alpha bundles › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Phage_Mu_F 0.88 76.0 5.38e-01 100.0% 33.2%
4032640 601.19.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Phage_Mu_F 0.88 75.0 4.98e-01 100.0% 26.1%
3946757 601.19.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › Phage_Mu_F 0.83 73.0 5.32e-01 100.0% 37.8%
4963299 304.24.1.43 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › PF25930 0.64 52.0 4.75e-01 90.1% 99.2%
3400015 223.2.1.10 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.60 37.0 3.28e-01 85.7% 42.3%
5058578 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.59 44.0 3.15e-01 86.8% 25.7%
5073525 223.2.1.5 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 0.58 37.0 3.31e-01 92.3% 47.2%
4953526 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.57 48.0 4.21e-01 91.2% 90.4%
3603961 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.56 46.0 4.07e-01 89.0% 92.3%
5027656 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.56 47.0 4.12e-01 93.4% 90.7%
605 4.1.2.1 ↗ beta barrels › SH3 › SH3 › Stringent starvation protein B, SspB › SspB 0.56 48.0 4.56e-01 95.6% 85.8%
5046333 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.55 45.0 4.00e-01 87.9% 91.5%
5072839 101.21.1.0 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit 0.55 45.0 3.87e-01 87.9% 91.4%
4048263 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.55 45.0 3.94e-01 87.9% 90.4%
3599644 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 46.0 3.55e-01 98.9% 40.9%
3696702 220.1.1.179 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ran-binding 0.53 41.0 3.15e-01 83.5% 99.5%
5046708 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 37.0 3.26e-01 73.6% 63.7%
3828823 3324.1.1.2 ↗ extended segments › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases 0.52 47.0 3.36e-01 100.0% 49.4%
3446290 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.52 41.0 3.72e-01 87.9% 89.2%
4275468 223.1.1.95 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › NtrY_N 0.51 44.0 3.63e-01 95.6% 71.2%
3221746 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 39.0 2.85e-01 90.1% 30.4%
3864859 633.23.1.4 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.51 46.0 3.48e-01 97.8% 67.0%
3236985 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.51 30.0 3.08e-01 86.8% 58.9%
3621256 633.23.1.4 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.50 38.0 2.80e-01 90.1% 30.4%
4518176 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.50 42.0 3.74e-01 90.1% 80.0%