←Back to structures

NC_028876.2__YP_009205131.1__AVT17_gp001__00001

Bact-Vir

NC_028876.2__YP_009205131.1__AVT17_gp001__00001

Identity

Accession:
NC_028876 ↗
Kingdom:
phage

Quality

88.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Omegavirus› Mycobacterium_phage_Ariel

TaxID: 1541824

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 133-236
PDB
Domain cluster: rep: NC_048790.1__YP_009849039.1__HWC46_gp60__00060__D135-211
D2 medium residues 2-36
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vx7000 2.30.170.20 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L24 0.75 64.0 5.36e-01 100.0% 66.1%
3m7kA00 3.30.40.220 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.54 42.0 2.91e-01 97.1% 24.6%
3vd6C01 3.30.50.10 Alpha Beta › 2-Layer Sandwich › Erythroid Transcription Factor GATA-1; Chain A › Erythroid Transcription Factor GATA-1, subunit A 0.51 41.0 4.03e-01 100.0% 90.2%
5fb0C01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.51 38.0 3.43e-01 97.1% 65.6%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4314985 377.1.1.15 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › YacG 0.78 66.0 6.21e-01 100.0% 79.1%
3394478 377.1.1.16 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › zf-FCS 0.78 70.0 6.38e-01 100.0% 95.6%
5007944 377.1.1.126 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Arc_trans_TRASH 0.74 65.0 6.20e-01 97.1% 95.0%
3908093 377.9.1.8 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › zf-FCS 0.73 65.0 5.98e-01 100.0% 86.7%
3762289 386.1.1.106 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-FCS 0.73 65.0 6.25e-01 100.0% 95.0%
3537096 377.1.1.16 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › zf-FCS 0.73 65.0 6.26e-01 100.0% 95.0%
3479234 377.9.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like 0.72 63.0 4.12e-01 97.1% 24.3%
3471959 109.4.1.72 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps16_C 0.72 63.0 3.52e-01 97.1% 8.8%
3528204 377.1.1.16 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › zf-FCS 0.72 62.0 5.99e-01 97.1% 92.5%
5030292 931.1.1.0 ↗ few secondary structure elements › Metallothionein › Metallothionein › Metallothionein 0.71 61.0 6.11e-01 100.0% 100.0%
3264583 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.71 59.0 5.94e-01 91.4% 100.0%
4926891 377.1.1.126 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Arc_trans_TRASH 0.71 63.0 5.76e-01 100.0% 86.7%
5011221 377.1.1.126 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Arc_trans_TRASH 0.71 63.0 6.06e-01 100.0% 97.5%
3416712 377.9.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like 0.70 59.0 5.70e-01 94.3% 90.0%
3714085 377.9.1.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › zf-MYND 0.70 63.0 6.01e-01 100.0% 90.0%
3878133 375.1.1.265 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-FCS 0.70 60.0 5.81e-01 97.1% 92.5%
5024734 375.1.1.323 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Arc_trans_TRASH 0.70 63.0 6.05e-01 100.0% 95.0%
4562058 377.1.1.31 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › YHS 0.69 56.0 5.26e-01 97.1% 88.9%
3489858 377.9.1.9 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › MYND_ZMYND11_ZMYD8 0.68 55.0 4.99e-01 100.0% 66.0%
None — 0.68 55.0 3.87e-01 97.1% 30.5%
3800970 377.9.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like 0.67 56.0 5.42e-01 100.0% 82.5%
3921605 377.9.1.9 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › MYND_ZMYND11_ZMYD8 0.66 55.0 3.84e-01 100.0% 28.7%
3405764 377.9.1.9 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › MYND_ZMYND11_ZMYD8 0.66 55.0 5.33e-01 100.0% 82.5%
3781281 377.9.1.4 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › zf-Mss51 0.63 52.0 4.16e-01 97.1% 49.3%
3935895 377.9.1.2 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › zf-HIT 0.62 51.0 4.96e-01 100.0% 85.0%
4026572 377.1.3.1 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › Zinc-binding subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › zf-FPG_IleRS 0.56 46.0 4.63e-01 100.0% 94.3%
3313615 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.56 44.0 4.47e-01 97.1% 97.1%
3221969 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.53 43.0 3.48e-01 94.3% 78.7%
3923069 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.53 43.0 2.53e-01 97.1% 74.2%
3549240 5.1.4.253 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, WD40_Gbeta 0.51 42.0 2.43e-01 97.1% 9.4%
3557789 377.9.1.21 ↗ few secondary structure elements › Glucocorticoid receptor-like › HIT/MYND zinc finger-like › HIT/MYND zinc finger-like › PHD 0.51 39.0 3.57e-01 91.4% 86.0%
D3 medium residues 42-74
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gviA03 3.30.60.20 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.67 52.0 5.19e-01 87.9% 94.1%
4jcjB01 2.10.110.10 Mainly Beta › Ribbon › Cysteine Rich Protein › Cysteine Rich Protein 0.60 47.0 3.96e-01 97.0% 72.3%
4fhdA01 3.40.50.12110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 37.0 2.54e-01 87.9% 16.8%
3dsbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 35.0 2.44e-01 100.0% 19.8%
4q7qB00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.55 35.0 2.11e-01 87.9% 7.8%
1jj2Y00 2.20.25.30 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.53 41.0 3.30e-01 90.9% 42.5%
5eyaF00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.52 39.0 3.23e-01 97.0% 55.3%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4201209 375.6.1.1 ↗ few secondary structure elements › Rubredoxin-like › FlhC-like › FlhC-like › FlhC 0.76 56.0 5.84e-01 81.8% 96.7%
3566939 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.75 56.0 5.53e-01 81.8% 88.6%
5018523 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.74 60.0 4.85e-01 100.0% 47.1%
3537307 377.1.1.34 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › FAM76 0.73 62.0 4.36e-01 100.0% 30.9%
3622966 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.72 62.0 5.87e-01 100.0% 95.0%
5050300 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 58.0 5.79e-01 93.9% 97.1%
3528840 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.70 60.0 5.22e-01 97.0% 74.0%
5042568 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 49.0 4.22e-01 81.8% 47.3%
4945257 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 51.0 4.37e-01 97.0% 51.7%
3629733 375.1.1.211 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ima1_N 0.62 51.0 4.43e-01 100.0% 83.6%
3678606 375.1.1.212 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_FGT1_2 0.61 46.0 4.60e-01 93.9% 82.9%
3862499 192.29.1.117 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Ima1_N 0.61 48.0 4.29e-01 100.0% 83.6%
3919489 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.61 50.0 4.78e-01 100.0% 97.5%
3802581 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 44.0 4.45e-01 90.9% 82.9%
5047273 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 44.0 4.24e-01 93.9% 97.5%
3243430 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.55 44.0 3.26e-01 97.0% 46.3%
3316725 375.1.1.276 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-C2H2_ZFAND2 0.54 38.0 3.98e-01 75.8% 100.0%
3271642 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.52 37.0 3.78e-01 90.9% 93.9%
4230268 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.51 40.0 3.72e-01 93.9% 66.7%
3355882 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.50 37.0 3.87e-01 84.8% 96.7%