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NC_048723.1__YP_009839963.1__HWB79_gp248__00038

Bact-Vir

NC_048723.1__YP_009839963.1__HWB79_gp248__00038

Identity

Accession:
NC_048723 ↗
Kingdom:
phage

Quality

85.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Stanwilliamsviridae› Karimacvirus› Streptomyces_phage_LukeCage

TaxID: 2283304

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 4-84
PDB
Domain cluster: rep: SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00088__D33-109
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01844.30 best HNH 27.9 2.90e-06 65.4% 93.6%
D2 medium residues 106-141
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1twcA01 4.10.860.120 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › RNA polymerase II, clamp domain 0.98 90.0 5.89e-01 100.0% 27.3%
5lbmA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.94 84.0 6.27e-01 100.0% 43.4%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.94 84.0 6.44e-01 100.0% 47.4%
3dkqA02 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.93 82.0 7.55e-01 100.0% 76.6%
4adzA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.92 81.0 5.96e-01 100.0% 40.0%
4cb8A00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.90 80.0 4.38e-01 100.0% 7.6%
2yinA01 1.25.40.410 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DOCK DHR2 domain, lobe A 0.90 78.0 5.20e-01 100.0% 27.3%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.88 75.0 5.75e-01 100.0% 42.4%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.88 73.0 5.13e-01 100.0% 31.0%
2g38B00 1.20.1260.20 Mainly Alpha › Up-down Bundle › Ferritin › PPE superfamily 0.86 74.0 4.71e-01 100.0% 22.5%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.85 73.0 6.27e-01 100.0% 91.5%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.84 72.0 6.11e-01 100.0% 59.0%
4jvyB00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.84 71.0 4.48e-01 100.0% 19.5%
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.83 68.0 6.37e-01 100.0% 74.5%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.82 68.0 5.29e-01 100.0% 43.5%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.82 63.0 5.49e-01 88.9% 98.3%
4akgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.81 67.0 4.38e-01 100.0% 27.4%
2wvxA04 1.20.1610.10 Mainly Alpha › Up-down Bundle › Glycosyl hydrolase family fold › alpha-1,2-mannosidases domains 0.80 67.0 4.35e-01 100.0% 21.4%
4h63K00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.80 66.0 4.94e-01 100.0% 36.7%
1p49A02 1.10.287.550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 59.0 5.26e-01 97.2% 96.6%
4asvA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.75 58.0 4.80e-01 100.0% 46.8%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 56.0 4.66e-01 100.0% 47.1%
2lseA00 1.20.120.1360 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 55.0 4.27e-01 100.0% 38.6%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.71 58.0 5.36e-01 100.0% 74.0%
4ip8A00 1.10.132.110 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein 0.71 59.0 4.30e-01 97.2% 33.3%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 57.0 5.27e-01 100.0% 70.6%
1v4gA01 6.10.140.800 Special › Helix non-globular › Helix Hairpins › 0.69 53.0 4.61e-01 100.0% 72.5%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.66 58.0 5.45e-01 100.0% 93.2%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 47.0 4.32e-01 100.0% 55.0%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.66 49.0 4.75e-01 100.0% 72.9%
2klqA00 1.20.58.870 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 56.0 3.97e-01 100.0% 88.6%
1o9gA02 1.10.287.540 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.63 49.0 4.74e-01 94.4% 79.1%
1t07A00 1.10.3880.10 Mainly Alpha › Orthogonal Bundle › YggX-like › Fe(II) trafficking protein YggX 0.63 54.0 4.20e-01 100.0% 75.3%
2d54A02 2.170.220.10 Mainly Beta › Beta Complex › Methionyl-trna Synthetase; domain 2 › 0.57 42.0 3.27e-01 100.0% 32.4%
3kflA02 2.170.220.10 Mainly Beta › Beta Complex › Methionyl-trna Synthetase; domain 2 › 0.55 42.0 3.21e-01 100.0% 29.8%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3402492 4177.1.1.2 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.99 93.0 5.49e-01 100.0% 16.7%
3293917 616.1.1.28 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › RNA_pol_Rpb1_1 0.98 91.0 6.06e-01 100.0% 30.0%
4026926 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.98 91.0 5.89e-01 100.0% 26.7%
3396277 192.17.1.12 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › WHEP-TRS 0.98 91.0 7.44e-01 100.0% 60.0%
3709588 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.97 88.0 6.60e-01 100.0% 45.0%
3326008 5086.1.1.96 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF632 0.96 87.0 6.14e-01 100.0% 36.0%
4878100 616.1.1.2 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS 0.96 87.0 8.27e-01 100.0% 85.7%
3592841 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.96 87.0 6.85e-01 100.0% 51.4%
5075979 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.96 87.0 7.02e-01 100.0% 55.4%
4249486 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.95 85.0 5.00e-01 100.0% 15.0%
4935885 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.94 84.0 4.74e-01 100.0% 10.7%
162110 616.1.1.2 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › WHEP-TRS 0.94 85.0 6.43e-01 100.0% 45.6%
3389693 192.1.1.0 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.94 83.0 5.46e-01 100.0% 26.7%
3611066 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.94 83.0 6.58e-01 100.0% 51.4%
3779372 220.1.1.115 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_19 0.94 82.0 5.12e-01 100.0% 20.0%
3410416 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.93 83.0 5.58e-01 100.0% 28.8%
3660125 3711.1.1.4 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DOG1 0.93 83.0 6.16e-01 100.0% 42.4%
3073109 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.92 80.0 6.30e-01 100.0% 48.6%
3646784 109.4.1.1407 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › STAG, SCD, HEAT_SCC3-SA 0.92 81.0 4.39e-01 100.0% 6.7%
3175298 130.1.1.51 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › Tho1_MOS11_C 0.91 78.0 6.63e-01 100.0% 60.0%
3474564 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.90 79.0 5.60e-01 100.0% 34.3%
3309055 159.1.2.1 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related › PRA-PH 0.90 78.0 6.60e-01 100.0% 61.7%
3916884 192.29.1.1 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB_dom 0.90 77.0 6.35e-01 100.0% 55.4%
3390311 604.7.1.0 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A 0.87 73.0 5.21e-01 100.0% 32.7%
3191420 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.86 72.0 6.06e-01 100.0% 55.4%
3441516 109.3.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_5 0.83 67.0 3.93e-01 100.0% 11.1%
3679373 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.82 68.0 5.74e-01 100.0% 55.4%
3618833 2484.8.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Separase pseudo-protease domain (PPD) › Separase pseudo-protease domain (PPD) 0.75 58.0 3.61e-01 100.0% 15.0%
5023608 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.69 59.0 4.03e-01 97.2% 66.9%