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NC_034248.1__YP_009352330.1__B7L88_gp171__00073

Bact-Vir

NC_034248.1__YP_009352330.1__B7L88_gp171__00073

Identity

Accession:
NC_034248 ↗
Kingdom:
phage

Quality

64.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHEph10

TaxID: 1220717

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 high residues 26-77
PDB
Domain cluster: representative
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.74 55.0 4.75e-01 100.0% 51.2%
6zzmA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.72 55.0 3.55e-01 82.7% 58.8%
3kvnA02 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.72 62.0 3.85e-01 100.0% 50.3%
1xexB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.65 46.0 3.27e-01 75.0% 44.1%
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.64 50.0 3.38e-01 88.5% 88.0%
3aa0B01 1.20.58.570 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › F-actin capping protein, alpha/beta subunit, N-terminal domain 0.63 41.0 3.48e-01 84.6% 39.8%
1zcdA00 1.20.1530.10 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › Na+/H+ antiporter like domain 0.63 53.0 3.23e-01 100.0% 19.9%
4djbA00 3.30.70.2870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 0.63 45.0 3.53e-01 88.5% 33.9%
4yg6B00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.61 38.0 2.73e-01 100.0% 19.6%
6kbyA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.60 48.0 2.98e-01 94.2% 44.2%
2nq2D00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 38.0 2.43e-01 94.2% 13.7%
2r8rA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 48.0 3.25e-01 92.3% 63.6%
2zihC00 1.10.3630.10 Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like 0.59 50.0 3.15e-01 96.2% 89.6%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.59 50.0 3.95e-01 96.2% 54.1%
4ejoA00 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 0.58 48.0 3.72e-01 100.0% 42.0%
1kqrA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.58 39.0 2.77e-01 100.0% 22.5%
4q05A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.58 45.0 2.78e-01 100.0% 13.8%
1vq0A02 3.90.1280.10 Alpha Beta › Alpha-Beta Complex › CBS domain Like › HSP33 redox switch-like 0.58 41.0 4.10e-01 94.2% 73.7%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 47.0 3.50e-01 94.2% 97.2%
2f4lA03 3.10.28.20 Alpha Beta › Roll › Endonuclease I-creI › Acetamidase/Formamidase-like domains 0.58 47.0 4.16e-01 94.2% 67.5%
1y4uB01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.58 49.0 3.38e-01 100.0% 92.8%
3f1yA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.57 43.0 2.66e-01 82.7% 18.6%
3vwoA02 2.10.70.40 Mainly Beta › Ribbon › Complement Module; domain 1 › peptidoglycan hydrolase 0.56 33.0 3.40e-01 78.8% 56.9%
2qsrA01 3.90.1150.50 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Transcription-repair-coupling factor, D7 domain 0.56 49.0 3.43e-01 96.2% 80.6%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.56 45.0 2.97e-01 96.2% 69.8%
1f2uB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 40.0 3.09e-01 100.0% 30.3%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.55 44.0 3.80e-01 94.2% 54.4%
3bzwF00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.54 40.0 2.73e-01 86.5% 58.8%
2z86D02 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.54 38.0 2.46e-01 75.0% 89.6%
2fdoA00 3.30.1970.10 Alpha Beta › 2-Layer Sandwich › AF2331-like fold › AF2331-like 0.53 38.0 3.19e-01 76.9% 83.9%
1ldjA05 4.10.1030.10 Few Secondary Structures › Irregular › Ring Box Chain A; domain 5 › Ring Box Chain A; domain 5 0.53 39.0 3.59e-01 82.7% 64.9%
2qrdE01 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 39.0 2.81e-01 84.6% 68.9%
4as2A02 1.20.1440.310 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.52 42.0 3.49e-01 94.2% 55.3%
2o18A00 3.10.520.10 Alpha Beta › Roll › T-fold › ApbE-like domains 0.52 42.0 2.64e-01 90.4% 56.7%
4indA01 2.60.120.1320 Mainly Beta › Sandwich › Jelly Rolls › 0.51 43.0 3.12e-01 94.2% 39.7%
2dqlA00 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 0.51 39.0 2.99e-01 94.2% 36.5%
6kf9G01 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 0.50 36.0 3.12e-01 90.4% 48.8%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 39.0 2.77e-01 88.5% 34.8%
3hnrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 39.0 2.71e-01 88.5% 35.8%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1391323 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.77 49.0 5.02e-01 94.2% 68.0%
3668229 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.73 40.0 2.35e-01 100.0% 7.8%
141070 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.73 50.0 4.92e-01 94.2% 66.7%
4880634 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.73 51.0 4.91e-01 98.1% 66.1%
3223614 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.72 57.0 3.60e-01 88.5% 21.1%
3303026 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.70 52.0 2.98e-01 100.0% 9.0%
1278602 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.68 50.0 4.86e-01 100.0% 71.7%
2440220 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.68 50.0 4.85e-01 100.0% 71.2%
3347497 109.4.1.1331 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_long, E_motif 0.67 50.0 3.20e-01 100.0% 17.6%
5055279 1075.1.2.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.65 55.0 3.78e-01 100.0% 45.4%
4024621 524.1.1.1 ↗ alpha arrays › Ypt/Rab-GAP domain of gyp1p-like › Ypt/Rab-GAP domain of gyp1p › Ypt/Rab-GAP domain of gyp1p › RabGAP-TBC 0.64 46.0 3.37e-01 80.8% 28.2%
3233638 5001.1.1.66 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg 0.64 53.0 3.29e-01 92.3% 29.3%
3803650 109.4.1.1335 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, E_motif 0.63 45.0 2.56e-01 98.1% 6.7%
3362870 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.62 47.0 2.97e-01 80.8% 17.3%
3806349 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.62 49.0 2.79e-01 100.0% 8.4%
3482243 263.1.1.1 ↗ a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.62 45.0 4.50e-01 100.0% 76.4%
3377656 207.1.1.137 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRR_4, LRR_8 0.61 41.0 2.37e-01 94.2% 7.0%
3479024 263.1.1.0 ↗ a+b three layers › SRF-like › SRF-like › SRF-like 0.61 44.0 4.40e-01 100.0% 76.4%
3641285 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.59 42.0 2.40e-01 92.3% 7.0%
3324101 207.1.1.47 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRR_6 0.59 39.0 2.36e-01 100.0% 9.4%
4170997 304.48.1.39 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › MatK_N 0.58 51.0 3.42e-01 100.0% 60.0%
3381794 207.1.1.57 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRRNT_2,LRR_4,LRR_6,LRR_8 0.58 42.0 2.29e-01 78.8% 3.9%
3079244 223.3.1.0 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins 0.58 38.0 3.74e-01 94.2% 56.7%
3468311 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.57 45.0 2.74e-01 100.0% 12.4%
3684691 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.57 40.0 2.28e-01 98.1% 6.2%
3369483 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.56 43.0 2.73e-01 100.0% 17.2%
3453496 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.56 40.0 2.34e-01 86.5% 9.2%
3455661 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.56 38.0 2.24e-01 86.5% 8.1%
3831231 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.55 38.0 2.19e-01 98.1% 6.3%
3168821 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.55 47.0 2.91e-01 98.1% 21.7%
3318043 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.55 41.0 2.33e-01 86.5% 7.0%
3666479 109.4.1.1156 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › E_motif 0.55 42.0 3.02e-01 98.1% 28.4%
3463429 109.4.1.1335 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, E_motif 0.55 40.0 2.30e-01 88.5% 8.2%
4956652 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.55 43.0 3.59e-01 86.5% 66.7%
3325708 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.55 39.0 2.39e-01 86.5% 13.3%
3327782 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.54 38.0 2.09e-01 86.5% 4.8%
3313373 4276.1.1.0 ↗ a+b two layers › XisI-like › XisI-like › XisI-like 0.54 47.0 4.11e-01 100.0% 82.5%
3459843 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.53 39.0 2.24e-01 88.5% 7.8%
3363044 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.53 39.0 2.29e-01 88.5% 9.2%
3382036 109.4.1.2177 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif, TPR_24 0.53 38.0 2.40e-01 92.3% 14.1%
3325965 109.4.1.1371 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, Eplus_motif, E_motif 0.53 40.0 2.34e-01 92.3% 9.1%
3364208 109.4.1.883 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.53 37.0 2.24e-01 86.5% 10.8%
3481511 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 38.0 3.42e-01 100.0% 54.7%
3447761 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.52 38.0 2.71e-01 86.5% 25.5%
3805784 109.4.1.3484 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_1, E_motif 0.52 40.0 2.83e-01 86.5% 27.1%
3348687 109.4.1.1156 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › E_motif 0.51 38.0 2.89e-01 86.5% 32.3%
3817779 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.51 39.0 2.41e-01 92.3% 13.7%
3672161 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.51 37.0 2.34e-01 86.5% 14.0%
3940062 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.50 43.0 2.71e-01 100.0% 45.4%