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MN988547.1__QIG75730.1__EVC19_159__00159

Bact-Vir

MN988547.1__QIG75730.1__EVC19_159__00159

Identity

Accession:
MN988547 ↗
Kingdom:
phage

Quality

93.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHph_Y2_11

TaxID: 2509589

Cluster

View cluster (4 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 4-73
PDB
Domain cluster: representative
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1v5mA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.69 49.0 3.94e-01 100.0% 38.2%
3c6aA00 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.69 54.0 3.85e-01 100.0% 29.8%
1ddvA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 45.0 3.92e-01 98.6% 45.2%
2i82B00 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.68 48.0 3.40e-01 74.3% 25.7%
1krlA00 6.20.50.130 Special › Other non-globular › N-terminal domain of TfIIb › 0.67 38.0 4.62e-01 82.9% 88.6%
7essA01 3.30.420.140 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › YqgF/RNase H-like domain 0.66 45.0 3.69e-01 98.6% 37.9%
1v9kA00 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.64 44.0 3.15e-01 74.3% 25.1%
1ufhA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 38.0 2.94e-01 75.7% 26.5%
3dsbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 38.0 3.38e-01 74.3% 40.6%
7z6eA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 52.0 4.38e-01 100.0% 55.7%
2l4vA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.61 39.0 3.20e-01 81.4% 34.8%
1a90A00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 43.0 3.70e-01 74.3% 54.6%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.60 34.0 3.74e-01 92.9% 69.6%
6d92A01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.59 53.0 3.62e-01 100.0% 45.1%
6u5vB07 3.30.1120.100 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.59 39.0 3.19e-01 84.3% 36.4%
1w96C04 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.59 43.0 2.93e-01 78.6% 35.5%
3iveA01 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.58 45.0 2.97e-01 84.3% 92.1%
5eh1A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 41.0 3.81e-01 77.1% 74.7%
6bm0A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 47.0 3.00e-01 98.6% 17.2%
3cjeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.56 40.0 3.16e-01 75.7% 69.3%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.55 32.0 2.91e-01 81.4% 36.9%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.54 40.0 2.76e-01 80.0% 35.3%
3q63F00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.52 40.0 3.23e-01 84.3% 92.1%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.52 43.0 3.65e-01 98.6% 76.5%
4ywzB00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 34.0 2.71e-01 80.0% 31.5%
2yfsA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 43.0 2.66e-01 97.1% 16.7%
1mu5A01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.51 43.0 3.20e-01 100.0% 73.3%
2fe7B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 42.0 3.27e-01 94.3% 63.3%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.51 35.0 3.43e-01 94.3% 65.0%
2yq2A02 2.60.40.3000 Mainly Beta › Sandwich › Immunoglobulin-like › Pestivirus envelope glycoprotein E2, domain B 0.51 37.0 3.67e-01 78.6% 75.0%
1pqzA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 44.0 3.93e-01 100.0% 94.1%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3628965 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.75 57.0 4.29e-01 100.0% 34.5%
4437930 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.72 50.0 3.46e-01 72.9% 23.1%
3932155 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.70 65.0 4.20e-01 100.0% 25.8%
3587376 386.1.1.344 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › Arm-DNA-bind_4 0.68 49.0 5.42e-01 94.3% 98.2%
3874654 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.68 47.0 3.65e-01 100.0% 33.3%
4947833 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 60.0 4.95e-01 100.0% 56.0%
4974067 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.67 42.0 3.20e-01 81.4% 28.4%
3207612 206.1.3.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › CPSase_L_D2 0.67 43.0 3.16e-01 90.0% 24.2%
3274134 304.102.1.1 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › PseudoU_synth_2 0.66 46.0 3.16e-01 74.3% 22.1%
4002601 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.65 48.0 3.65e-01 100.0% 32.9%
3396837 295.1.1.4 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › COMM_domain 0.65 53.0 5.38e-01 98.6% 91.4%
3801480 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 48.0 3.72e-01 100.0% 36.1%
5033234 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.64 45.0 3.50e-01 100.0% 35.2%
3938164 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.64 46.0 4.78e-01 94.3% 81.5%
4003604 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 51.0 4.52e-01 100.0% 60.0%
3721305 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.62 44.0 3.90e-01 74.3% 57.3%
3742593 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.62 44.0 3.99e-01 75.7% 56.7%
3294429 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.61 41.0 3.77e-01 75.7% 53.3%
4600905 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.61 41.0 3.91e-01 74.3% 60.0%
3599646 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.61 43.0 3.94e-01 75.7% 56.7%
4927022 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.60 40.0 3.63e-01 74.3% 50.5%
3208791 331.4.1.26 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › Med13_N 0.60 41.0 2.75e-01 70.0% 53.9%
3767941 220.1.1.115 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_19 0.60 42.0 3.45e-01 100.0% 39.2%
5035683 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.59 40.0 3.72e-01 74.3% 55.7%
3249433 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.59 40.0 3.78e-01 75.7% 57.6%
3220915 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.59 39.0 3.65e-01 75.7% 53.3%
4271190 2.1.1.24 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › CcmE 0.57 36.0 2.89e-01 98.6% 31.4%
3587488 243.1.1.5 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › Tim44 0.57 42.0 3.26e-01 78.6% 40.3%
3856436 243.3.1.1 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Cystatin 0.56 41.0 3.57e-01 77.1% 53.2%
3828275 219.1.1.71 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › PDDEXK_6 0.56 46.0 3.39e-01 88.6% 70.0%
5051860 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.56 37.0 3.46e-01 75.7% 53.3%
3734660 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.55 45.0 3.44e-01 95.7% 83.7%
3903191 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.55 39.0 3.55e-01 77.1% 57.0%
5028185 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 39.0 3.77e-01 75.7% 81.2%
3592050 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 48.0 3.86e-01 100.0% 54.1%
4858268 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 31.0 3.65e-01 78.6% 83.3%
3609240 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.54 45.0 3.22e-01 92.9% 41.0%
5028530 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.53 36.0 3.40e-01 75.7% 55.6%
3261977 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.53 36.0 3.50e-01 75.7% 60.0%
3567155 220.1.1.115 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_19 0.53 44.0 3.29e-01 98.6% 36.6%
3882182 220.1.1.132 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › KRIT1_FRMD8_FERM_C 0.53 38.0 3.28e-01 98.6% 43.8%
3484545 2.3.1.0 ↗ beta barrels › OB-fold › TIMP-like › TIMP-like 0.53 42.0 3.64e-01 90.0% 90.4%
3492201 295.1.1.1 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PC4 0.52 37.0 3.64e-01 84.3% 69.3%
4023312 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.51 44.0 3.68e-01 98.6% 73.6%
3494084 4.1.1.19 ↗ beta barrels › SH3 › SH3 › SH3 › LSM 0.51 31.0 2.78e-01 77.1% 40.8%
3906210 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 37.0 3.44e-01 78.6% 70.0%
None — 0.50 43.0 4.04e-01 95.7% 98.8%