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NC_028926.1__YP_009210042.1__AVV20_gp07__00007

Bact-Vir

NC_028926.1__YP_009210042.1__AVV20_gp07__00007

Identity

Accession:
NC_028926 ↗
Kingdom:
phage

Quality

85.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pagevirus› Bacillus_phage_Palmer

TaxID: 1597966

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 medium residues 46-115
PDB
Domain cluster: rep: MK533143.1__QBX06377.1__API480_9__00009__D32-85
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.88 58.0 4.90e-01 100.0% 44.3%
5ar1A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 52.0 3.72e-01 90.0% 90.2%
6bbtA02 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.61 45.0 3.84e-01 80.0% 79.8%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.60 41.0 3.96e-01 70.0% 91.0%
2xzm901 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.60 43.0 4.29e-01 75.7% 100.0%
1i24A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 43.0 3.03e-01 80.0% 55.5%
4mbsA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.58 49.0 3.14e-01 95.7% 34.7%
4qtcA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.58 42.0 3.03e-01 77.1% 47.6%
3qjlA02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 3.62e-01 81.4% 93.3%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.56 41.0 3.71e-01 77.1% 95.9%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 37.0 2.75e-01 71.4% 40.3%
1vx7H01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.54 42.0 4.05e-01 88.6% 100.0%
4e1oA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 39.0 3.60e-01 80.0% 95.9%
3py9A04 2.60.40.2560 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 36.0 3.56e-01 72.9% 93.6%
2r15A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 40.0 3.41e-01 81.4% 88.3%
1dpgA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 42.0 2.80e-01 91.4% 90.3%
2orzA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 35.0 2.79e-01 70.0% 86.4%
1f0lA03 2.60.40.700 Mainly Beta › Sandwich › Immunoglobulin-like › Diphtheria toxin, receptor-binding domain 0.52 39.0 3.14e-01 84.3% 70.1%
3kmhA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 37.0 2.68e-01 80.0% 36.7%
1hkfA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 34.0 3.07e-01 71.4% 88.0%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4377056 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.86 44.0 3.86e-01 100.0% 36.0%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.82 49.0 5.93e-01 70.0% 93.3%
4280403 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.74 45.0 5.39e-01 71.4% 95.6%
1346119 4076.4.1.1 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain › PriS_C 0.74 45.0 5.13e-01 71.4% 84.3%
4927873 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.72 44.0 4.71e-01 71.4% 71.7%
4981952 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.72 44.0 5.06e-01 71.4% 86.0%
4944185 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.71 44.0 4.62e-01 71.4% 67.7%
5024995 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 42.0 4.81e-01 71.4% 83.0%
3907844 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.68 47.0 3.46e-01 72.9% 93.2%
5066664 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.68 41.0 4.92e-01 71.4% 95.6%
4254993 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.66 46.0 4.06e-01 72.9% 62.0%
3549240 5.1.4.253 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, WD40_Gbeta 0.65 37.0 2.29e-01 75.7% 10.4%
3176188 109.4.1.3157 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF29173, PF29174, PF29177 0.65 46.0 2.84e-01 72.9% 14.1%
3290645 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.64 54.0 4.45e-01 90.0% 84.2%
3386489 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.64 51.0 3.78e-01 84.3% 87.1%
4939413 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.63 41.0 4.70e-01 70.0% 94.0%
4997639 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 46.0 3.99e-01 85.7% 52.4%
2409733 11.1.4.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › DUF7601 0.61 45.0 3.77e-01 80.0% 76.2%
3248342 4.1.1.54 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_2 0.61 30.0 3.13e-01 84.3% 47.7%
3522910 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.58 31.0 3.05e-01 88.6% 46.7%
3604145 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.57 31.0 3.38e-01 71.4% 63.3%
3410668 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.56 38.0 3.03e-01 70.0% 75.3%
5029856 4955.1.1.0 ↗ a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.56 37.0 3.60e-01 70.0% 80.0%
3236416 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.55 47.0 3.01e-01 97.1% 32.2%
4264107 304.48.1.17 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B_2 0.55 47.0 3.13e-01 95.7% 60.7%
3197800 221.13.1.2 ↗ a+b two layers › beta-Grasp › Mitochondrial calcium uniporter N-terminal domain › Mitochondrial calcium uniporter N-terminal domain › RRG1_C 0.55 52.0 3.82e-01 100.0% 71.5%
4929483 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.54 47.0 3.97e-01 98.6% 65.8%
3617823 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.54 45.0 4.10e-01 91.4% 84.9%
4182877 4968.1.1.1 ↗ a+b complex topology › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › insertion domain in bacteriophage phi29 DNA polymerase › DNA_pol_B_2 0.53 36.0 3.23e-01 71.4% 52.0%
3225668 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.53 40.0 2.79e-01 80.0% 30.9%
3912477 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.53 45.0 2.94e-01 95.7% 33.4%
3256893 11.1.1.542 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Gryzun-like 0.52 36.0 3.15e-01 72.9% 76.4%
3771628 189.1.1.0 ↗ alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP 0.52 43.0 2.75e-01 88.6% 38.1%
3714105 304.48.1.11 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RNA_pol 0.51 46.0 3.34e-01 100.0% 44.3%
5010998 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.51 37.0 3.51e-01 80.0% 85.6%
3201815 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 34.0 3.19e-01 70.0% 85.3%
5017338 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.51 32.0 2.81e-01 70.0% 37.6%
1179939 10.12.1.37 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Lyx_isomer 0.51 37.0 2.66e-01 80.0% 35.4%
3219454 2484.1.1.190 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FBA_2 0.50 39.0 2.84e-01 92.9% 71.6%