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NC_070889.1__YP_010662874.1__PP940_gp196__00196

Bact-Vir

NC_070889.1__YP_010662874.1__PP940_gp196__00196

Identity

Accession:
NC_070889 ↗
Kingdom:
phage

Quality

65.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Innesvirus› Rhizobium_phage_RL2RES

TaxID: 103371

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 3-56
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w1hD00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.79 59.0 4.41e-01 81.5% 34.3%
1vpkA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.77 53.0 4.01e-01 72.2% 92.5%
3t0pA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.74 52.0 3.61e-01 74.1% 65.1%
2codA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.73 55.0 4.63e-01 83.3% 50.0%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.73 56.0 4.50e-01 85.2% 46.8%
1vpkA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.72 50.0 3.78e-01 72.2% 88.3%
2kuqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.71 53.0 3.89e-01 83.3% 32.7%
5ejrA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 51.0 4.53e-01 79.6% 53.8%
2fn0B00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.70 55.0 3.27e-01 87.0% 22.1%
1xd3C00 3.40.532.10 Alpha Beta › 3-Layer(aba) Sandwich › Ubiquitin C-terminal Hydrolase UCH-l3 › Peptidase C12, ubiquitin carboxyl-terminal hydrolase 0.70 60.0 4.00e-01 100.0% 73.6%
2wdtC02 3.30.1490.420 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ubiquitin carboxyl-terminal hydrolase, domain 2 0.69 60.0 4.93e-01 100.0% 64.4%
1w5rA01 3.30.2140.10 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › Arylamine N-acetyltransferase 0.69 55.0 3.87e-01 92.6% 27.7%
3pvlA04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.69 52.0 4.34e-01 83.3% 51.5%
1w4tA01 3.30.2140.10 Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › Arylamine N-acetyltransferase 0.68 55.0 3.83e-01 98.1% 27.0%
2qzuA02 3.30.1120.10 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.68 48.0 4.12e-01 74.1% 56.5%
3fy6A01 3.30.2210.10 Alpha Beta › 2-Layer Sandwich › Integron cassette protein fold › Integron cassette protein superfamily 0.68 60.0 4.81e-01 100.0% 93.5%
3ml4A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.25e-01 83.3% 57.0%
2cocA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 50.0 4.16e-01 81.5% 53.0%
2yf0A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.42e-01 83.3% 56.3%
3igfA02 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.68 52.0 4.70e-01 83.3% 62.2%
3au4A04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 51.0 4.30e-01 83.3% 48.4%
3d6wB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.67 47.0 4.37e-01 81.5% 58.6%
3fvcA03 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.65 56.0 4.41e-01 96.3% 94.5%
4b8eB00 2.60.120.920 Mainly Beta › Sandwich › Jelly Rolls › SPRY domain 0.64 56.0 3.88e-01 100.0% 55.7%
2p6rA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 49.0 3.34e-01 85.2% 88.3%
2gcjA01 2.30.29.150 Mainly Beta › Roll › PH-domain like › 0.63 56.0 4.15e-01 98.1% 58.2%
3ei3A02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 53.0 3.27e-01 98.1% 33.0%
4cbvA02 2.40.50.1020 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › LytTr DNA-binding domain 0.60 45.0 3.53e-01 81.5% 47.5%
1vq8E01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.60 50.0 4.39e-01 90.7% 86.1%
5kmpB00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.60 45.0 2.72e-01 83.3% 35.7%
1okqA02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.60 52.0 3.67e-01 100.0% 69.1%
3kd6A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.60 52.0 3.26e-01 98.1% 35.3%
2gzaA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.60 41.0 3.27e-01 72.2% 35.2%
2ywlA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 45.0 3.17e-01 83.3% 65.7%
7lgjA01 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.59 48.0 3.27e-01 96.3% 39.0%
3mazA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 49.0 4.07e-01 100.0% 87.9%
5gaeG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.57 46.0 4.10e-01 90.7% 84.0%
2ntkB00 3.60.20.20 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Inosine monophosphate cyclohydrolase-like 0.57 48.0 3.29e-01 98.1% 54.0%
1vx7H01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.57 45.0 3.98e-01 90.7% 83.5%
3oc4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 48.0 3.68e-01 94.4% 95.8%
4a17E01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.56 46.0 4.03e-01 92.6% 83.5%
5zx8A00 3.40.50.1470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidyl-tRNA hydrolase 0.56 40.0 2.89e-01 81.5% 38.2%
3lovA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 41.0 3.03e-01 81.5% 60.5%
5mmiG01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.54 44.0 3.86e-01 90.7% 82.1%
6ui4A02 1.20.58.530 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 39.0 2.95e-01 81.5% 100.0%
2d0bA01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.50 43.0 3.65e-01 96.3% 73.0%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3602759 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.84 65.0 6.24e-01 81.5% 75.0%
3235669 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.83 68.0 5.09e-01 100.0% 38.4%
3239249 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.83 68.0 4.26e-01 100.0% 18.8%
3236616 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.83 68.0 4.22e-01 100.0% 17.8%
3225057 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.81 66.0 4.49e-01 100.0% 25.9%
3936608 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.79 60.0 4.75e-01 83.3% 58.2%
4028777 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.78 59.0 3.33e-01 100.0% 7.2%
5977 227.1.1.3 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DNA_pol3_beta 0.77 53.0 4.01e-01 72.2% 92.5%
3247669 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.76 63.0 4.03e-01 100.0% 19.3%
3211176 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.75 64.0 4.09e-01 100.0% 20.0%
3212555 2484.1.1.200 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.75 62.0 4.69e-01 100.0% 38.5%
3212404 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.75 62.0 3.98e-01 100.0% 19.6%
3289942 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.74 56.0 4.84e-01 83.3% 51.8%
3228574 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.74 63.0 4.01e-01 100.0% 20.1%
3468148 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.73 58.0 3.97e-01 98.1% 24.1%
3226293 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.73 62.0 3.99e-01 100.0% 20.0%
3706686 4263.2.1.0 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain 0.72 55.0 5.19e-01 83.3% 72.3%
3267918 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.71 53.0 5.31e-01 81.5% 81.8%
3222321 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.71 61.0 3.91e-01 98.1% 20.4%
5025855 319.1.1.4 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › ArsA_HSP20 0.71 52.0 4.74e-01 81.5% 60.0%
3436173 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.71 58.0 3.54e-01 98.1% 15.3%
3222575 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.71 60.0 3.86e-01 100.0% 20.1%
3220002 2484.1.1.200 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FTH 0.71 63.0 4.01e-01 100.0% 21.5%
3215907 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.70 61.0 3.93e-01 100.0% 22.6%
4082530 865.1.1.2 ↗ beta complex topology › PheT/TilS domain › PheT/TilS domain › PheT/TilS domain › TilS_C 0.70 54.0 4.26e-01 98.1% 40.9%
154893 219.1.1.6 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.69 56.0 3.53e-01 92.6% 17.6%
5009920 2004.1.1.308 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 0.69 46.0 2.82e-01 70.4% 33.0%
3235531 207.1.1.52 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FBA_2 0.69 59.0 3.82e-01 98.1% 21.3%
5060936 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.69 41.0 3.46e-01 70.4% 34.4%
4992470 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.69 52.0 5.08e-01 83.3% 80.0%
4998173 319.1.1.4 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › ArsA_HSP20 0.67 50.0 4.50e-01 83.3% 57.3%
3949940 319.1.1.4 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › ArsA_HSP20 0.67 50.0 4.32e-01 81.5% 51.8%
4530314 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.67 53.0 5.22e-01 96.3% 82.8%
5016314 220.1.1.219 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › CheF-arch 0.66 59.0 4.22e-01 98.1% 62.0%
4100425 11.1.4.90 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › DUF4550 0.66 59.0 4.43e-01 100.0% 80.8%
5063899 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 58.0 3.82e-01 100.0% 75.9%
3607176 101.17.1.4 ↗ alpha arrays › HTH › IHF-like DNA-binding proteins › IHF-like DNA-binding proteins › HU-CCDC81_euk_2 0.65 43.0 3.66e-01 70.4% 43.9%
3227356 633.23.1.4 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.65 57.0 3.83e-01 100.0% 65.1%
3404845 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.65 56.0 4.63e-01 96.3% 69.5%
4971601 241.14.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › SARS-unique domain-C › SARS-unique domain-C 0.65 54.0 5.08e-01 100.0% 97.1%
3717837 633.23.1.23 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › Amastin 0.65 52.0 3.62e-01 90.7% 68.1%
3872745 319.1.1.5 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › PIH1_CS 0.64 47.0 3.86e-01 81.5% 41.9%
3985978 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 50.0 4.28e-01 90.7% 53.3%
368152 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.62 44.0 3.10e-01 74.1% 57.0%
81576 880.1.1.1 ↗ a+b duplicates or obligate multimers › ADC synthase › ADC synthase › ADC synthase › Chorismate_bind 0.62 54.0 3.43e-01 98.1% 22.5%
3887129 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 54.0 4.54e-01 98.1% 72.2%
4020676 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.61 52.0 3.54e-01 96.3% 66.7%
3209881 109.4.1.207 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.60 47.0 2.67e-01 85.2% 7.9%
3595430 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.60 51.0 3.49e-01 98.1% 66.0%
4938286 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.60 43.0 3.39e-01 81.5% 36.5%
4242523 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.57 48.0 4.23e-01 92.6% 87.5%
3550365 331.23.1.2 ↗ a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain › IntS9_C 0.55 39.0 3.42e-01 85.2% 51.3%
D2 high residues 68-165
PDB