←Back to structures

NC_028924.1__YP_009209701.1__AVT43_gp41__00041

Bact-Vir

NC_028924.1__YP_009209701.1__AVT43_gp41__00041

Identity

Accession:
NC_028924 ↗
Kingdom:
phage

Quality

83.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Incheonvirus› Polaribacter_phage_P12002L

TaxID: 1647386

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 1-43
PDB
Domain cluster: representative
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k59A06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.93 80.0 7.78e-01 93.0% 85.1%
2rklF00 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 0.91 76.0 7.06e-01 90.7% 75.0%
4gyoB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.91 75.0 5.13e-01 93.0% 28.1%
2ra1A02 1.20.58.780 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.90 80.0 6.78e-01 97.7% 64.7%
2yxyA01 1.10.287.880 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Hypothetical protein YfhH domain 0.90 77.0 7.30e-01 95.3% 80.0%
6fdpA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.89 70.0 4.98e-01 86.0% 30.8%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.88 81.0 7.90e-01 100.0% 95.7%
2xkoC02 6.10.250.870 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.88 70.0 7.38e-01 86.0% 100.0%
7ru9C01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.88 78.0 4.70e-01 97.7% 15.7%
2qvaA02 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 0.88 78.0 7.27e-01 97.7% 83.0%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.87 79.0 5.39e-01 100.0% 33.3%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.87 79.0 7.43e-01 100.0% 86.3%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.87 75.0 6.20e-01 97.7% 61.8%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.87 74.0 6.96e-01 97.7% 78.8%
2i9cA01 1.25.40.70 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Phosphatidylinositol 3-kinase, accessory domain (PIK) 0.87 78.0 5.66e-01 100.0% 45.0%
4lzgA01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.86 73.0 5.57e-01 97.7% 43.0%
4gyoA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.86 75.0 4.69e-01 97.7% 19.5%
3tdvA02 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.86 73.0 4.66e-01 97.7% 20.4%
2katA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.85 76.0 5.50e-01 100.0% 37.4%
1xnfA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.85 67.0 4.05e-01 86.0% 14.3%
2fjcB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.84 75.0 5.00e-01 100.0% 29.5%
3iq1B00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.83 73.0 4.91e-01 100.0% 29.6%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.82 68.0 6.00e-01 93.0% 62.5%
3craB01 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.82 70.0 5.57e-01 97.7% 53.5%
3ph0C00 1.25.40.1040 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.82 62.0 5.86e-01 86.0% 67.9%
1qu3A04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.80 69.0 4.74e-01 100.0% 41.3%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.80 69.0 6.38e-01 100.0% 76.8%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.80 70.0 6.07e-01 100.0% 65.2%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.80 68.0 4.99e-01 100.0% 46.3%
1iwpG02 1.10.1510.20 Mainly Alpha › Orthogonal Bundle › Hypothetical Protein Yqey; Chain: A; domain1 › Propanediol/glycerol dehydratase, small subunit 0.76 65.0 5.06e-01 97.7% 47.3%
4bg5B00 1.10.3160.10 Mainly Alpha › Orthogonal Bundle › Bbcrasp-1 › Bbcrasp-1 0.67 58.0 3.78e-01 100.0% 22.1%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4168739 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.98 85.0 8.86e-01 90.7% 97.5%
4582542 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.97 82.0 6.98e-01 90.7% 60.3%
4432094 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.97 83.0 7.99e-01 93.0% 81.2%
4640528 4146.1.1.0 ↗ alpha bundles › YqgQ-like › YqgQ-like › YqgQ-like 0.96 79.0 8.21e-01 90.7% 95.0%
4189162 192.11.1.0 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB 0.96 80.0 8.31e-01 88.4% 95.0%
4063607 192.17.1.11 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › UVR 0.95 81.0 8.45e-01 90.7% 97.5%
5051215 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.95 86.0 6.89e-01 95.3% 54.7%
4237659 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.95 75.0 7.39e-01 83.7% 84.4%
4419795 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.94 77.0 8.02e-01 90.7% 95.0%
4943613 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.94 84.0 7.15e-01 97.7% 63.1%
3406125 604.12.1.7 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1_C 0.93 78.0 7.68e-01 90.7% 86.7%
4472442 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.93 80.0 8.33e-01 95.3% 100.0%
4877881 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.92 76.0 7.90e-01 90.7% 97.5%
4193 4970.1.1.0 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.91 78.0 7.82e-01 93.0% 93.0%
4642864 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.91 82.0 7.76e-01 97.7% 86.0%
4228771 506.2.1.0 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain 0.90 80.0 5.22e-01 95.3% 26.2%
None — 0.90 83.0 4.58e-01 100.0% 8.5%
5072052 3718.1.1.0 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT 0.90 78.0 6.71e-01 95.3% 64.6%
4530141 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.90 83.0 7.84e-01 100.0% 90.0%
3310874 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.90 76.0 7.90e-01 95.3% 100.0%
3452959 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.89 79.0 7.85e-01 97.7% 95.6%
3531994 150.1.1.188 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › CC2D1A-B_DM14 0.89 81.0 5.34e-01 100.0% 29.0%
3241723 192.17.1.6 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like › CC2D1A-B_DM14 0.88 80.0 6.54e-01 100.0% 60.0%
3262528 138.1.1.0 ↗ alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain 0.87 79.0 6.34e-01 100.0% 53.8%
4324075 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.86 78.0 7.54e-01 100.0% 89.6%
4618805 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.86 78.0 7.13e-01 100.0% 85.5%
4071066 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.84 73.0 6.96e-01 97.7% 84.0%
5044068 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.81 71.0 5.49e-01 100.0% 49.5%