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NC_012662.1__YP_002875636.1__VPP93_gp12__00012

Bact-Vir

NC_012662.1__YP_002875636.1__VPP93_gp12__00012

Identity

Accession:
NC_012662 ↗
Kingdom:
phage

Quality

66.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autoscriptoviridae› Maculvirus› Vibrio_phage_VP93

TaxID: 641832

Cluster

View cluster (14 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 high residues 23-70
PDB
Domain cluster: rep: AY682195.1__AAV35876.1__orf56__00056__D75-123
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u3eM02 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 0.87 77.0 6.87e-01 100.0% 70.6%
3bxwA03 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.63 55.0 5.28e-01 100.0% 100.0%
3a43B02 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.58 39.0 4.45e-01 100.0% 100.0%
4ba0A03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 38.0 3.82e-01 97.9% 66.7%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.57 39.0 3.71e-01 100.0% 59.0%
2ckaA01 3.40.5.120 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.55 41.0 4.14e-01 100.0% 79.6%
3gv4A00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.54 39.0 3.09e-01 100.0% 37.4%
2qqrA02 3.10.330.70 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.54 45.0 4.45e-01 100.0% 98.1%
4tpuA02 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.54 37.0 4.17e-01 100.0% 94.6%
1jceA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 36.0 2.67e-01 77.1% 40.5%
4oifA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 32.0 3.01e-01 100.0% 48.4%
6nw1A00 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.51 41.0 4.27e-01 97.9% 97.8%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2876 101.1.14.2 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.87 77.0 6.83e-01 100.0% 69.6%
4519945 101.1.14.4 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › PF31232 0.82 73.0 7.08e-01 100.0% 98.1%
4384880 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.77 67.0 5.61e-01 100.0% 58.8%
3587703 101.1.14.0 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases 0.76 65.0 6.47e-01 100.0% 94.0%
4414927 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.76 66.0 5.88e-01 100.0% 71.0%
3171408 101.1.14.3 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 0.74 63.0 6.26e-01 97.9% 96.0%
3058113 101.1.14.0 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases 0.73 60.0 5.89e-01 100.0% 86.5%
4961283 101.1.2.935 ↗ alpha arrays › HTH › HTH › winged helix domain › HVO_B0008_C 0.64 50.0 3.89e-01 87.5% 76.1%
4643287 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.64 45.0 3.22e-01 100.0% 24.7%
3217685 822.1.1.0 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain 0.63 45.0 4.25e-01 100.0% 63.8%
3296049 4121.1.1.2 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like 0.61 47.0 3.21e-01 97.9% 32.6%
4099915 375.1.1.128 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_SprT 0.59 39.0 4.43e-01 93.8% 94.3%
4008034 223.1.1.113 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PF30408 0.59 44.0 3.11e-01 85.4% 34.7%
3983134 223.1.1.113 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PF30408 0.59 43.0 3.57e-01 85.4% 59.0%
3750234 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 40.0 4.07e-01 100.0% 82.2%
3719787 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 43.0 4.58e-01 100.0% 100.0%
5057952 375.1.1.325 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › OapC 0.56 38.0 3.44e-01 100.0% 52.3%
3886999 386.1.1.20 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-met 0.55 38.0 3.99e-01 97.9% 90.0%
4967657 375.1.1.325 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › OapC 0.55 38.0 3.90e-01 100.0% 77.8%
3838150 375.1.1.59 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rubredoxin_2 0.55 35.0 3.66e-01 100.0% 71.1%
3977310 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.54 39.0 3.12e-01 85.4% 60.8%
4945555 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 36.0 4.00e-01 100.0% 100.0%
4019073 4154.1.1.0 ↗ beta duplicates or obligate multimers › E2F-DP heterodimerization region › E2F-DP heterodimerization region › E2F-DP heterodimerization region 0.52 45.0 3.57e-01 100.0% 62.0%
4268554 375.1.1.1 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › tRNA-synt_1 0.51 43.0 3.76e-01 100.0% 75.0%
4026823 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 42.0 4.34e-01 100.0% 100.0%
3513265 386.1.1.14 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-LYAR 0.50 34.0 3.28e-01 100.0% 61.8%
4470809 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.50 42.0 3.96e-01 97.9% 98.3%