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MW980061.1__QXV73541.1__X__00007

Bact-Vir

MW980061.1__QXV73541.1__X__00007

Identity

Accession:
MW980061 ↗
Kingdom:
phage

Quality

66.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Rhizobium_phage_RHph_X2_30

TaxID: 2836126

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 4-48
PDB
D2 medium residues 56-95
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jveA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.79 66.0 5.48e-01 100.0% 53.5%
7ahbB01 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.73 62.0 5.54e-01 100.0% 100.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.72 61.0 4.08e-01 100.0% 46.1%
5ttjA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.69 48.0 3.03e-01 90.0% 13.6%
2kt4B01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.68 53.0 3.81e-01 100.0% 93.0%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.68 55.0 5.23e-01 100.0% 86.0%
3fysA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.67 50.0 3.39e-01 82.5% 86.3%
7agpA01 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.67 56.0 4.99e-01 100.0% 100.0%
2in3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.66 50.0 4.11e-01 87.5% 44.4%
2qmwA03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.66 56.0 4.63e-01 100.0% 100.0%
2dt8A01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 49.0 3.31e-01 87.5% 88.6%
3rrkA03 3.30.70.2750 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 50.0 4.24e-01 95.0% 87.8%
3au4A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.63 49.0 3.96e-01 100.0% 44.7%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.62 49.0 3.57e-01 100.0% 27.0%
2ccqA00 1.20.58.2190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 49.0 3.77e-01 92.5% 100.0%
4x9xA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.61 47.0 3.24e-01 87.5% 31.5%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.61 49.0 3.95e-01 100.0% 53.3%
2cs4A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.61 45.0 3.58e-01 100.0% 36.8%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.61 47.0 3.19e-01 87.5% 28.8%
2lstA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.60 47.0 3.34e-01 87.5% 63.8%
1pzxA02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.60 45.0 4.64e-01 100.0% 97.1%
1sfxB00 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 0.60 50.0 3.67e-01 92.5% 52.9%
1lf7A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 46.0 3.25e-01 100.0% 74.4%
3pvlA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.59 46.0 3.73e-01 100.0% 45.8%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 48.0 3.86e-01 100.0% 53.2%
4r70B03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.59 45.0 3.15e-01 87.5% 43.0%
1h3dA03 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 44.0 4.03e-01 100.0% 88.1%
2q0oA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.58 45.0 2.99e-01 85.0% 92.3%
4ehoB03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.56 42.0 2.88e-01 87.5% 47.5%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 47.0 3.21e-01 100.0% 52.9%
2qyxA02 3.30.70.1360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › mj0159-like 0.56 41.0 3.29e-01 100.0% 40.7%
7qi3A01 3.30.2140.20 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › 0.56 46.0 2.76e-01 95.0% 77.3%
3jr7A02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.55 43.0 4.44e-01 100.0% 92.1%
3tzgA00 2.40.160.150 Mainly Beta › Beta Barrel › Porin › 0.54 42.0 2.75e-01 100.0% 96.7%
2e50B02 3.30.1120.90 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Nucleosome assembly protein 0.54 40.0 3.01e-01 85.0% 93.7%
3fdjA02 2.20.28.50 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › DegV, N-terminal domain, peripheral subdomain 0.54 42.0 4.31e-01 97.5% 89.5%
2x3lB03 3.90.105.10 Alpha Beta › Alpha-Beta Complex › Molybdopterin biosynthesis moea protein, domain 2 › Molybdopterin biosynthesis moea protein, domain 2 0.53 44.0 4.00e-01 100.0% 79.7%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.53 40.0 2.66e-01 100.0% 43.9%
3jrqA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.53 42.0 2.65e-01 97.5% 26.6%
4hjhA03 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.52 41.0 3.14e-01 97.5% 49.6%
2g9gA00 2.60.120.1020 Mainly Beta › Sandwich › Jelly Rolls › PAW domain 0.51 40.0 2.71e-01 97.5% 87.8%
4q0jA03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.50 42.0 2.94e-01 97.5% 50.0%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3972612 308.1.1.0 ↗ a+b two layers › ClpS-like › ClpS-related › ClpS-related 0.93 86.0 6.28e-01 100.0% 73.7%
169110 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.79 66.0 5.51e-01 100.0% 54.3%
4461643 379.1.1.3 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.78 61.0 5.38e-01 100.0% 58.3%
3409700 4114.1.1.2 ↗ a+b two layers › PHP14-like › PHP14-like › PHP14-like › Ocnus 0.75 60.0 4.52e-01 100.0% 40.9%
3405569 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.75 61.0 4.45e-01 100.0% 33.6%
4122132 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.73 49.0 2.86e-01 70.0% 37.9%
5043379 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.69 56.0 4.90e-01 95.0% 100.0%
3637401 4081.1.1.8 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT_2 0.69 56.0 3.56e-01 97.5% 17.3%
4938855 5103.1.1.0 ↗ a/b three-layered sandwiches › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 0.68 58.0 4.39e-01 100.0% 98.0%
3577630 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.68 57.0 4.10e-01 100.0% 38.5%
4967778 329.1.1.2 ↗ a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › DUF4443 0.67 52.0 3.77e-01 87.5% 30.9%
3205036 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.67 54.0 3.38e-01 97.5% 15.5%
5000280 5103.1.1.0 ↗ a/b three-layered sandwiches › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 0.66 55.0 4.27e-01 100.0% 64.0%
3258276 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.66 54.0 3.38e-01 97.5% 16.9%
3620456 221.1.1.64 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Formin_GBD_N 0.66 56.0 4.13e-01 100.0% 39.1%
4394562 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.63 49.0 2.80e-01 87.5% 20.2%
5038375 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.63 53.0 3.39e-01 100.0% 19.5%
4214386 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.62 48.0 3.26e-01 87.5% 34.2%
4652722 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.62 48.0 3.35e-01 87.5% 93.3%
5061960 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.62 44.0 2.49e-01 82.5% 6.4%
4944465 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.61 48.0 3.26e-01 90.0% 36.3%
4944238 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.61 47.0 3.22e-01 87.5% 35.3%
4216350 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.61 47.0 3.19e-01 87.5% 35.6%
3564821 9.1.1.1 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.61 48.0 3.43e-01 100.0% 82.6%
5029894 2004.1.2.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › PEP carboxykinase catalytic C-terminal domain 0.61 46.0 3.30e-01 100.0% 26.1%
3876105 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.60 45.0 3.57e-01 100.0% 36.8%
3588327 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.60 46.0 3.16e-01 87.5% 35.3%
3781202 3662.1.1.2 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › POC3_POC4 0.59 46.0 3.44e-01 87.5% 38.2%
4451316 2010.1.1.1 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › DegV 0.59 47.0 3.24e-01 92.5% 54.2%
4995671 3115.1.1.12 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › PF30567 0.55 41.0 4.05e-01 100.0% 78.0%
3260247 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.53 46.0 3.64e-01 97.5% 88.0%
3407846 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.51 42.0 3.20e-01 97.5% 87.0%
3369011 207.1.1.55 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRR_8 0.50 40.0 2.28e-01 100.0% 9.2%