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MK820013.2__QDF45945.1__vBVpaPMGD2_6__00006

Bact-Vir

MK820013.2__QDF45945.1__vBVpaPMGD2_6__00006

Identity

Accession:
MK820013 ↗
Kingdom:
phage

Quality

44.7 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 medium residues 16-81
PDB
Domain cluster: rep: MG004687.1__ATS93353.1__mutPK1A2_p54__00051__D23-76
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2rtsA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.62 46.0 4.47e-01 100.0% 71.2%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.62 38.0 4.33e-01 71.2% 89.1%
1v6zA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.61 51.0 5.15e-01 93.9% 93.8%
2o3gA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.61 44.0 4.22e-01 87.9% 65.8%
1goiB03 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.61 41.0 4.53e-01 98.5% 90.2%
1wvvB01 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.61 41.0 4.72e-01 98.5% 97.9%
2pliA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.60 44.0 4.11e-01 87.9% 61.9%
2nqwA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.59 44.0 4.07e-01 89.4% 62.1%
2oaiA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.58 45.0 4.25e-01 83.3% 76.2%
2p4pA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.58 45.0 4.17e-01 83.3% 81.0%
3ci0K01 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.56 41.0 3.63e-01 80.3% 83.7%
1ed7A00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.56 37.0 4.24e-01 80.3% 100.0%
1d8cA02 2.170.170.11 Mainly Beta › Beta Complex › Malate synthase G - maily-beta sub-domain › Malate synthase G - maily-beta sub-domain 0.55 38.0 3.12e-01 72.7% 71.9%
3hurA01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.53 39.0 3.02e-01 81.8% 47.8%
1aiwA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.52 40.0 4.14e-01 95.5% 88.7%
1iktA00 3.30.1050.10 Alpha Beta › 2-Layer Sandwich › Nonspecific Lipid-transfer Protein; Chain A › SCP2 sterol-binding domain 0.52 37.0 3.15e-01 77.3% 48.7%
3wx7A02 2.10.10.90 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.51 42.0 3.75e-01 92.4% 67.4%
4evsA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.50 42.0 3.26e-01 100.0% 84.8%
1yueA02 2.10.10.40 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.50 42.0 4.33e-01 100.0% 100.0%
3vskA03 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 38.0 2.48e-01 86.4% 57.3%
4tvcA01 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.50 42.0 3.16e-01 100.0% 44.7%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3721249 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.67 36.0 3.94e-01 72.7% 61.8%
4948029 284.4.1.3 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain › FKBP26_C 0.65 42.0 4.68e-01 77.3% 88.0%
3519410 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.64 37.0 4.56e-01 80.3% 97.4%
4241370 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.64 45.0 4.24e-01 74.2% 63.7%
4074370 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.63 44.0 4.16e-01 72.7% 60.0%
4398943 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.63 43.0 4.19e-01 72.7% 65.3%
3289363 239.1.1.7 ↗ beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › Lhr_WH 0.63 40.0 4.22e-01 83.3% 71.7%
4961832 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.63 44.0 4.10e-01 72.7% 62.5%
5047208 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.60 41.0 4.39e-01 75.8% 85.5%
4444075 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.60 38.0 4.50e-01 83.3% 100.0%
4966144 3454.1.1.9 ↗ beta barrels › GspC HR domain/PilP-like › GspC HR domain/PilP-like › GspC HR domain/PilP-like › PF26687 0.60 43.0 4.31e-01 78.8% 95.7%
3920534 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.59 37.0 3.02e-01 80.3% 33.6%
7161 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.59 44.0 4.07e-01 89.4% 62.1%
3573819 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.59 34.0 3.88e-01 74.2% 77.6%
4030628 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 39.0 2.36e-01 98.5% 9.2%
3629049 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.58 41.0 3.65e-01 74.2% 95.8%
4953632 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.57 43.0 4.02e-01 89.4% 63.5%
4009007 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.57 41.0 4.59e-01 97.0% 100.0%
4944404 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 42.0 3.47e-01 80.3% 71.5%
3504386 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.57 38.0 3.75e-01 80.3% 64.3%
80910 217.2.1.1 ↗ a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC 0.57 44.0 4.06e-01 90.9% 64.0%
4646632 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.55 38.0 3.89e-01 83.3% 73.8%
1694867 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.55 40.0 4.43e-01 95.5% 98.1%
3603079 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.54 37.0 2.84e-01 71.2% 59.4%
5012193 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 40.0 2.91e-01 81.8% 33.8%
3518895 391.1.2.9 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › Fn1_2 0.54 41.0 3.67e-01 84.8% 86.0%
3936759 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.53 36.0 3.53e-01 72.7% 72.0%
4009008 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.52 41.0 4.42e-01 92.4% 100.0%
3972100 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.52 44.0 4.45e-01 98.5% 93.8%
3291162 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.52 42.0 3.32e-01 93.9% 66.7%
5051542 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 39.0 2.88e-01 83.3% 62.6%
4991373 2003.1.5.46 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.51 34.0 2.44e-01 71.2% 68.1%
3931939 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.50 38.0 3.63e-01 80.3% 77.3%
D2 medium residues 278-365
PDB