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NC_028926.1__YP_009210077.1__AVV20_gp42__00042

Bact-Vir

NC_028926.1__YP_009210077.1__AVV20_gp42__00042

Identity

Accession:
NC_028926 ↗
Kingdom:
phage

Quality

84.8 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 4-48
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.88 74.0 6.35e-01 100.0% 60.3%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.87 72.0 6.04e-01 100.0% 55.4%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.86 80.0 5.82e-01 100.0% 47.7%
3udcA01 1.10.287.1260 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 75.0 5.44e-01 100.0% 43.5%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.82 75.0 5.51e-01 100.0% 47.7%
4ke2A00 6.10.140.1860 Special › Helix non-globular › Helix Hairpins › 0.77 64.0 4.18e-01 100.0% 21.9%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 65.0 5.33e-01 100.0% 58.8%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.75 64.0 5.46e-01 100.0% 59.5%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.74 61.0 4.89e-01 97.8% 46.2%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.73 63.0 4.94e-01 100.0% 45.7%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 61.0 4.62e-01 100.0% 39.8%
2kg7B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 63.0 4.92e-01 100.0% 50.5%
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 63.0 5.94e-01 100.0% 96.3%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.71 59.0 5.21e-01 91.1% 65.6%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.71 56.0 4.45e-01 100.0% 43.5%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.70 58.0 5.63e-01 100.0% 84.3%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.69 56.0 4.80e-01 100.0% 56.3%
3eabE00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 57.0 4.66e-01 100.0% 50.0%
1op1A00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.67 56.0 4.66e-01 100.0% 53.7%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 53.0 4.71e-01 91.1% 62.5%
2g8lA02 1.10.285.20 Mainly Alpha › Orthogonal Bundle › Glutamate Dehydrogenase; Chain A, domain 3 › Uncharacterised protein PF01937, DUF89, domain 2 0.66 52.0 4.68e-01 91.1% 67.7%
7m7iA02 3.30.70.3290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 52.0 4.45e-01 95.6% 54.1%
1fc6A01 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.65 53.0 4.14e-01 91.1% 41.8%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.65 57.0 4.74e-01 100.0% 67.5%
1chuA03 1.20.58.100 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Fumarate reductase/succinate dehydrogenase flavoprotein-like, C-terminal domain 0.65 54.0 4.47e-01 100.0% 56.8%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 57.0 4.92e-01 100.0% 78.3%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 57.0 5.26e-01 100.0% 80.7%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 50.0 3.68e-01 84.4% 34.8%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.64 54.0 4.28e-01 100.0% 74.5%
3fd0A01 3.90.1150.60 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Methioning gamme-lyase, C-terminal domain 0.63 49.0 3.41e-01 97.8% 98.4%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.63 51.0 4.69e-01 100.0% 68.7%
3sqiA01 1.10.150.540 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.63 56.0 4.32e-01 100.0% 58.6%
2y1vA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 56.0 3.69e-01 100.0% 27.6%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.63 55.0 4.53e-01 100.0% 58.5%
1b06A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.63 43.0 3.79e-01 100.0% 49.3%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.62 51.0 4.40e-01 100.0% 59.5%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.62 54.0 3.83e-01 100.0% 65.5%
3vkgB03 1.20.58.1120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4 0.62 50.0 3.58e-01 97.8% 47.4%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.62 51.0 3.91e-01 91.1% 41.4%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 52.0 4.78e-01 100.0% 88.7%
1sq5C00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.61 54.0 3.26e-01 100.0% 18.5%
3fcnA00 1.20.1220.20 Mainly Alpha › Up-down Bundle › Malate Synthase G; Chain: A; Domain 4 › Uncharcterised protein PF01724 0.60 51.0 3.56e-01 100.0% 28.5%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.60 50.0 4.29e-01 100.0% 59.7%
1ma1A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.59 50.0 4.48e-01 97.8% 70.3%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 49.0 3.64e-01 100.0% 38.7%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.58 46.0 4.05e-01 100.0% 57.7%
2dt7B01 1.10.10.790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module 0.58 43.0 4.00e-01 86.7% 62.7%
3ns4A00 1.10.357.110 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Vacuolar protein sorting-associated protein 53, C-terminus 0.58 46.0 3.14e-01 100.0% 22.0%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3568627 3755.3.1.312 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Leu_zip 0.76 66.0 4.89e-01 100.0% 39.1%
4479861 310.2.1.77 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › Leu_zip 0.75 64.0 4.82e-01 100.0% 39.1%
3640760 3291.1.1.17 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF202 0.71 62.0 4.67e-01 100.0% 63.6%
2722819 3758.2.1.1 alpha bundles › Bacterial hemolysins-like › Biopolymer transport protein ExbB › Biopolymer transport protein ExbB › MotA_ExbB 0.71 56.0 3.50e-01 91.1% 16.5%
3876829 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.71 60.0 4.61e-01 100.0% 43.0%
3315195 2484.1.1.106 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.71 60.0 3.84e-01 100.0% 20.0%
4010416 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.70 61.0 4.43e-01 100.0% 96.8%
3798984 3560.1.1.0 a+b complex topology › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 › Mediator of RNA polymerase II transcription subunit 8 0.70 58.0 3.80e-01 100.0% 22.1%
3681104 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.69 59.0 3.67e-01 100.0% 17.7%
3839108 310.2.1.65 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › MotA_ExbB 0.68 61.0 4.36e-01 100.0% 37.6%
3733951 5042.1.1.0 extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region 0.67 54.0 4.85e-01 97.8% 81.4%
3552520 241.15.1.3 a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › SPC25 0.67 56.0 5.08e-01 100.0% 92.3%
3632710 630.1.1.2 a+b complex topology › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › RuBisCo LSMT C-terminal, substrate-binding domain › PF29521 0.67 59.0 4.23e-01 100.0% 38.5%
3944187 5059.1.1.7 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › DMT_YdcZ 0.66 55.0 3.93e-01 100.0% 30.7%
3110288 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.66 56.0 4.79e-01 100.0% 58.4%
3248309 2485.1.1.17 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › OST3_OST6 0.64 53.0 4.00e-01 97.8% 59.2%
3280086 101.1.2.48 alpha arrays › HTH › HTH › winged helix domain › PadR 0.63 52.0 3.45e-01 91.1% 22.8%
4998530 2498.1.1.10 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.63 54.0 3.30e-01 100.0% 16.2%
3993361 622.4.1.41 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › DUF7753 0.62 52.0 4.73e-01 100.0% 93.8%
5018636 605.1.1.3 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_2 0.61 51.0 4.56e-01 100.0% 68.6%
3614068 5055.1.1.0 extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.60 52.0 4.38e-01 100.0% 62.5%
3488979 192.5.1.0 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.60 54.0 3.88e-01 100.0% 38.4%
4178707 192.6.1.1 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.57 51.0 4.98e-01 100.0% 94.0%
3922588 3559.1.1.40 a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Bap31 0.56 50.0 3.41e-01 100.0% 29.1%
D2 medium residues 62-141
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x48A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.73 42.0 5.00e-01 90.0% 85.2%
3hh0A01 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.67 35.0 3.67e-01 72.5% 55.6%
2isyA01 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 0.63 41.0 3.40e-01 85.0% 38.4%
3iuoA00 1.10.10.1390 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › ATP-dependent DNA helicase RecQ 0.63 46.0 4.14e-01 100.0% 56.9%
1s6lA01 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 0.62 38.0 4.38e-01 83.7% 92.3%
2a61B00 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 0.62 41.0 3.41e-01 83.7% 39.4%
3bj6B00 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 40.0 3.23e-01 85.0% 35.8%
3i71B00 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 0.57 33.0 3.80e-01 91.3% 79.3%
1rp3G02 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.57 45.0 3.72e-01 86.3% 80.3%
6s6hA01 1.10.10.2830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.56 37.0 3.39e-01 91.3% 50.5%
4qicC01 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.55 46.0 3.97e-01 100.0% 59.2%
3oopA01 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 0.54 34.0 2.94e-01 85.0% 37.3%
2lfwA01 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.52 48.0 3.89e-01 100.0% 66.0%
3ajfA00 1.20.1440.190 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tenuivirus movement protein 0.51 32.0 3.15e-01 88.7% 56.5%
3b34A05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.50 42.0 2.92e-01 100.0% 34.8%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3656429 101.1.1.267 alpha arrays › HTH › HTH › Three-helical HTH › PF26138 0.76 52.0 3.78e-01 71.2% 46.8%
139963 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.73 42.0 5.00e-01 90.0% 85.2%
4347676 101.1.6.4 alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C 0.61 48.0 4.59e-01 90.0% 72.2%
4106860 101.1.6.4 alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C 0.59 48.0 4.48e-01 90.0% 71.6%
4533441 101.1.6.4 alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C 0.59 48.0 4.53e-01 95.0% 72.6%
4604979 101.1.6.4 alpha arrays › HTH › HTH › TrpR › Bac_DnaA_C 0.57 48.0 4.31e-01 88.7% 72.1%
4943051 101.1.11.0 alpha arrays › HTH › HTH › Ribbon-helix-helix 0.56 41.0 4.11e-01 78.8% 96.5%
3670113 101.1.1.129 alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_4 0.55 47.0 4.55e-01 95.0% 81.1%
4937892 101.1.3.32 alpha arrays › HTH › HTH › tetra-helical, LuxR-like › RHH_1 0.52 39.0 3.72e-01 82.5% 80.0%
3819780 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.52 47.0 4.31e-01 96.2% 85.0%