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JN700520.2__AFD22246.1__X__00033

Bact-Vir

JN700520.2__AFD22246.1__X__00033

Identity

Accession:
JN700520 ↗
Kingdom:
phage

Quality

75.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_StB12

TaxID: 1147042

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 17-78
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.94 86.0 6.76e-01 96.8% 51.3%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.87 64.0 5.11e-01 77.4% 42.1%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.86 76.0 6.19e-01 95.2% 54.1%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.84 74.0 6.03e-01 95.2% 54.1%
1lj2A00 1.20.5.970 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Nonstructural RNA-binding protein 0.82 74.0 6.15e-01 100.0% 67.9%
6z4xA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.78 53.0 3.89e-01 71.0% 39.4%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.77 55.0 5.59e-01 77.4% 76.7%
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.74 50.0 5.39e-01 71.0% 88.5%
4jleA00 6.10.280.180 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Plasmodium RESA, N-terminal helical domain 0.73 64.0 4.85e-01 100.0% 41.6%
2felA00 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.70 58.0 3.64e-01 91.9% 17.5%
4biuE01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.69 60.0 5.16e-01 98.4% 78.6%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.67 46.0 4.34e-01 71.0% 64.9%
2qm8A03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.67 49.0 4.90e-01 79.0% 86.2%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.55 40.0 3.37e-01 80.6% 45.7%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4828003 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.94 87.0 6.70e-01 96.8% 49.6%
3988447 5043.1.1.0 ↗ extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.94 68.0 7.25e-01 79.0% 85.5%
3269863 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.90 68.0 4.04e-01 82.3% 12.4%
3742303 310.2.1.1 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.87 77.0 5.30e-01 95.2% 30.4%
3720672 109.4.1.1591 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › U-box 0.87 81.0 5.12e-01 100.0% 34.6%
4433527 109.4.1.3336 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1, TPR_2, ANAPC3, CHIP_TPR_N 0.84 76.0 5.22e-01 100.0% 47.8%
3282520 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.83 61.0 5.84e-01 77.4% 68.6%
5073290 4307.1.1.0 ↗ alpha duplicates or obligate multimers › EB1 dimerisation domain-like › EB1 dimerisation domain-like › EB1 dimerisation domain-like 0.82 76.0 6.89e-01 100.0% 97.5%
4963000 192.15.1.224 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › SHOCT 0.80 58.0 5.29e-01 80.6% 58.7%
4996292 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.80 68.0 5.77e-01 95.2% 58.0%
5042312 375.1.9.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase 0.79 55.0 4.58e-01 72.6% 42.9%
3769584 4146.1.1.4 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like › FAM216B 0.79 67.0 6.15e-01 95.2% 72.5%
3377698 192.15.1.2 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Mod_r 0.78 62.0 5.04e-01 83.9% 49.1%
4971500 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.78 53.0 4.22e-01 71.0% 36.7%
4037682 101.1.1.26 ↗ alpha arrays › HTH › HTH › Three-helical HTH › UPF0122 0.76 55.0 4.60e-01 75.8% 48.0%
3187337 630.1.1.0 ↗ 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 0.73 60.0 4.36e-01 95.2% 31.7%
None — 0.65 56.0 3.18e-01 100.0% 27.8%
3663440 109.4.1.359 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Exo70_C 0.64 52.0 3.09e-01 100.0% 10.4%