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NC_070844.1__YP_010657159.1__PP656_gp012__00012

Bact-Vir

NC_070844.1__YP_010657159.1__PP656_gp012__00012

Identity

Accession:
NC_070844 ↗
Kingdom:
phage

Quality

89.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yihwangvirus› Bacillus_phage_pW4

TaxID: 2500560

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 14-78
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.96 82.0 6.83e-01 89.2% 67.0%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.96 79.0 8.10e-01 86.2% 93.5%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.95 89.0 5.76e-01 100.0% 27.1%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.94 74.0 7.52e-01 81.5% 85.7%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.94 86.0 5.60e-01 100.0% 26.6%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.93 84.0 7.68e-01 95.4% 85.2%
1vcsA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.92 74.0 6.19e-01 89.2% 53.9%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.91 72.0 6.70e-01 89.2% 69.2%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 69.0 6.63e-01 81.5% 78.1%
6f1eA01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.89 62.0 4.70e-01 78.5% 33.8%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.89 73.0 7.42e-01 87.7% 89.1%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.88 81.0 6.61e-01 100.0% 57.1%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.88 76.0 7.11e-01 93.8% 81.0%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.86 79.0 5.37e-01 100.0% 57.1%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.85 64.0 3.85e-01 80.0% 12.9%
1sg2A00 3.30.910.20 Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain 0.85 78.0 5.93e-01 100.0% 46.1%
1i4dA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.84 75.0 5.31e-01 98.5% 55.9%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.84 69.0 6.33e-01 92.3% 69.5%
2fb5A01 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.84 71.0 6.86e-01 92.3% 81.9%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.84 62.0 6.43e-01 78.5% 100.0%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.83 59.0 6.04e-01 76.9% 77.4%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 73.0 6.98e-01 93.8% 86.5%
2qe7G01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.83 75.0 6.53e-01 100.0% 79.4%
4dylA02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.81 73.0 6.42e-01 100.0% 74.5%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.80 66.0 6.02e-01 89.2% 67.4%
1u7lA02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.79 69.0 4.94e-01 96.9% 55.7%
2oznB01 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.79 60.0 5.56e-01 81.5% 65.0%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.79 72.0 6.67e-01 100.0% 82.5%
1ykhA00 6.10.140.200 Special › Helix non-globular › Helix Hairpins › 0.75 70.0 6.06e-01 100.0% 70.5%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 61.0 5.93e-01 92.3% 84.0%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.75 63.0 5.45e-01 100.0% 59.8%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 57.0 5.77e-01 84.6% 84.4%
3okqA00 1.20.58.1540 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Actin interacting protein 3, C-terminal domain 0.74 67.0 5.38e-01 100.0% 53.6%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.74 64.0 6.10e-01 96.9% 82.9%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.74 61.0 5.51e-01 92.3% 67.8%
3eabE00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 58.0 5.29e-01 84.6% 64.0%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 64.0 5.92e-01 100.0% 77.1%
3g80A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 61.0 5.92e-01 93.8% 84.9%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 58.0 5.91e-01 92.3% 92.1%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 59.0 5.61e-01 90.8% 80.8%
1ylmA00 1.20.120.580 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › bsu32300-like 0.71 55.0 4.30e-01 87.7% 38.7%
2b3tB01 6.10.140.1980 Special › Helix non-globular › Helix Hairpins › 0.67 50.0 5.09e-01 81.5% 81.5%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.66 49.0 5.12e-01 86.2% 89.8%
2x6hA03 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.50 44.0 3.15e-01 98.5% 77.5%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4982959 3922.1.1.357 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Auto_anti-p27 0.97 77.0 6.49e-01 83.1% 54.0%
4001186 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.96 91.0 6.25e-01 100.0% 56.3%
3512620 3755.4.1.1 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › PI3K_P85_iSH2 0.96 87.0 6.26e-01 100.0% 38.7%
3634628 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.96 91.0 5.34e-01 100.0% 82.0%
4473674 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.95 85.0 6.91e-01 98.5% 55.5%
3184698 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.94 86.0 7.52e-01 96.9% 70.0%
3799718 11.2.1.25 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PL48 0.93 87.0 5.62e-01 100.0% 26.0%
3276646 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.92 85.0 6.43e-01 100.0% 45.7%
3962634 150.5.1.11 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › T7SS_ESX_EspC 0.92 85.0 7.66e-01 98.5% 100.0%
3919843 604.1.1.124 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin_6 0.92 83.0 6.43e-01 100.0% 48.5%
3385727 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.91 86.0 5.46e-01 100.0% 25.6%
3441715 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.91 82.0 6.72e-01 95.4% 56.4%
3241038 109.4.1.368 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SHNi-TPR 0.91 81.0 4.88e-01 100.0% 16.1%
3618651 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.91 84.0 7.53e-01 100.0% 74.1%
3908132 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.91 85.0 5.50e-01 100.0% 81.9%
3917938 4177.1.1.5 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.91 84.0 5.65e-01 100.0% 56.7%
3503307 1203.1.2.1 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › ASD2 0.90 84.0 6.09e-01 100.0% 40.6%
3167298 3711.1.1.0 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.89 81.0 6.84e-01 100.0% 66.7%
4475138 606.1.1.16 ↗ alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Transposase_20 0.89 77.0 5.21e-01 95.4% 29.5%
4960061 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.89 79.0 6.76e-01 96.9% 63.0%
3791628 1203.1.2.0 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.89 69.0 5.22e-01 83.1% 100.0%
3646344 109.4.1.235 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SRP68 0.87 64.0 4.35e-01 90.8% 23.8%
5012794 4333.1.1.0 ↗ a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.87 79.0 4.82e-01 100.0% 17.7%
3601853 604.7.1.0 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A 0.87 81.0 6.07e-01 100.0% 44.8%
4372535 3683.1.1.0 ↗ 0.87 80.0 5.59e-01 100.0% 35.3%
3528346 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.87 76.0 5.53e-01 95.4% 38.8%
4943532 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 0.86 69.0 6.77e-01 89.2% 80.0%
4336724 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.86 76.0 6.25e-01 100.0% 56.4%
5045487 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.86 80.0 6.28e-01 100.0% 71.2%
4043561 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.85 78.0 6.42e-01 100.0% 58.2%
4025445 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.85 78.0 6.65e-01 100.0% 66.0%
3917917 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.85 74.0 6.14e-01 98.5% 56.4%
3286299 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.84 73.0 6.09e-01 100.0% 56.4%
5071229 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.84 73.0 6.15e-01 95.4% 58.1%
3935029 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.83 76.0 6.04e-01 100.0% 54.4%
4039014 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.83 72.0 6.01e-01 100.0% 56.4%
3739245 4177.1.1.14 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR_2 0.83 75.0 5.13e-01 100.0% 33.0%
4276314 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.83 73.0 5.03e-01 100.0% 31.4%
3700672 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.82 73.0 6.00e-01 98.5% 60.0%
3498152 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.81 74.0 5.22e-01 100.0% 85.3%
3168493 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.79 69.0 5.00e-01 93.8% 76.4%
3485831 109.4.1.840 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CFA69_ARM_rpt 0.79 66.0 4.35e-01 93.8% 22.6%
3518985 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.77 57.0 4.90e-01 78.5% 52.0%
3505389 2004.1.1.144 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD_2 0.76 68.0 4.19e-01 100.0% 18.1%
3459951 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.75 60.0 5.07e-01 89.2% 53.6%
4030113 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.74 61.0 5.34e-01 89.2% 64.2%
3497911 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.74 62.0 4.97e-01 96.9% 49.6%