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MN988507.1__QIG69413.1__EVB79_043__00043

Bact-Vir

MN988507.1__QIG69413.1__EVB79_043__00043

Identity

Accession:
MN988507 ↗
Kingdom:
phage

Quality

82.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHph_N3_13

TaxID: 2509745

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 3-195
PDB
Domain cluster: rep: Glutamine-fructose-6-phosphate_amidotransferase__NP_048448__Paramecium_bursaria_Chlorella_virus_1__10506__D3-231
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1te5A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.73 68.0 6.20e-01 100.0% 88.1%
6czfA01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.72 67.0 5.62e-01 100.0% 69.2%
1xffA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 67.0 6.16e-01 100.0% 85.7%
1ao0A01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.69 65.0 5.55e-01 100.0% 67.7%
4zfjD00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.69 65.0 6.15e-01 100.0% 85.5%
2r6fA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.64 26.0 4.12e-01 93.3% 100.0%
1j5yA02 3.30.1340.20 Alpha Beta › 2-Layer Sandwich › Histidine-containing Protein; Chain: A; › 3H domain 0.53 29.0 3.72e-01 100.0% 93.5%
2v5yA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 26.0 3.49e-01 99.5% 91.2%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5073588 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.80 76.0 6.80e-01 100.0% 87.2%
3942872 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.79 75.0 6.72e-01 100.0% 88.2%
3965213 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.78 74.0 6.50e-01 100.0% 81.5%
4995664 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.77 73.0 6.38e-01 100.0% 82.9%
5077548 210.1.3.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.77 72.0 6.18e-01 100.0% 89.8%
5012635 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.77 73.0 6.47e-01 100.0% 85.3%
3782814 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.77 72.0 6.18e-01 100.0% 87.4%
5075402 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.77 72.0 6.24e-01 100.0% 83.9%
5046400 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.76 72.0 6.40e-01 100.0% 88.7%
5041223 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.76 72.0 6.07e-01 100.0% 87.9%
5027271 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.76 71.0 6.48e-01 100.0% 94.0%
4971386 210.1.3.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.76 71.0 6.07e-01 100.0% 91.9%
4960069 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.75 71.0 6.65e-01 100.0% 86.1%
4100017 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.75 70.0 6.17e-01 100.0% 86.9%
4955225 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.74 70.0 6.32e-01 100.0% 85.5%
3963395 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.74 70.0 6.28e-01 100.0% 89.0%
5038401 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.74 70.0 6.02e-01 100.0% 87.4%
3532427 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.74 69.0 6.20e-01 100.0% 85.0%
5027645 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.73 69.0 6.17e-01 100.0% 88.8%
3741900 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.73 69.0 6.16e-01 100.0% 86.2%
4954583 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.73 69.0 6.36e-01 100.0% 89.2%
3973007 210.1.3.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.72 68.0 6.20e-01 100.0% 88.0%
5081419 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.72 69.0 6.04e-01 100.0% 87.8%
3280543 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.72 68.0 6.24e-01 100.0% 90.2%
4944470 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.72 68.0 6.25e-01 100.0% 86.5%
None — 0.72 68.0 6.26e-01 100.0% 88.7%
None — 0.72 68.0 6.31e-01 100.0% 88.5%
5052100 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.72 67.0 6.12e-01 100.0% 88.0%
3953557 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.72 68.0 6.04e-01 100.0% 87.3%
4484517 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.71 68.0 6.14e-01 100.0% 83.2%
4149445 210.1.3.4 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_6 0.71 68.0 6.18e-01 100.0% 83.3%
None — 0.71 67.0 6.17e-01 100.0% 87.9%
4989808 210.1.3.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.71 67.0 6.35e-01 100.0% 94.2%
3356117 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.71 66.0 5.59e-01 100.0% 79.4%
4588679 210.1.3.4 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_6 0.71 66.0 6.06e-01 99.5% 86.9%
4259223 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 67.0 6.19e-01 100.0% 86.8%
4541620 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 5.98e-01 100.0% 84.3%
None — 0.70 66.0 5.66e-01 100.0% 81.0%
None — 0.70 66.0 6.11e-01 100.0% 85.4%
4991572 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 6.11e-01 100.0% 82.9%
4994995 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 6.13e-01 100.0% 89.4%
5032499 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 6.04e-01 100.0% 89.4%
3963821 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 6.00e-01 100.0% 82.4%
3993653 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 66.0 5.60e-01 100.0% 83.3%
3196133 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.70 65.0 5.45e-01 100.0% 89.1%
5054721 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.69 66.0 6.06e-01 100.0% 84.2%
5066749 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.69 65.0 5.97e-01 100.0% 82.4%
4976794 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.67 63.0 5.92e-01 100.0% 88.7%
5049285 210.1.3.5 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.66 62.0 5.85e-01 100.0% 88.3%
4986617 210.1.3.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.65 61.0 5.80e-01 100.0% 87.7%
D2 medium residues 265-376
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2a9uA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.63 46.0 4.46e-01 75.9% 78.6%
4mk6A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 44.0 3.79e-01 93.8% 100.0%
4nt1A00 1.10.3520.10 Mainly Alpha › Orthogonal Bundle › Glycolipid transfer protein, GLTP › Glycolipid transfer protein 0.51 38.0 3.18e-01 78.6% 98.0%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3693630 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.70 53.0 3.41e-01 79.5% 42.9%
4315070 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.65 40.0 3.40e-01 100.0% 40.0%
5005257 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.63 41.0 3.56e-01 72.3% 42.9%
2722819 3758.2.1.1 ↗ alpha bundles › Bacterial hemolysins-like › Biopolymer transport protein ExbB › Biopolymer transport protein ExbB › MotA_ExbB 0.62 55.0 4.26e-01 95.5% 91.1%
None — 0.56 38.0 3.94e-01 76.8% 74.3%
5028088 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.52 36.0 3.36e-01 72.3% 88.9%
3684672 621.1.1.3 ↗ alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Sey1_3HB 0.51 39.0 4.14e-01 83.0% 98.0%