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NC_031231.1__YP_009301313.1__BJD78_gp56__00056

Bact-Vir

NC_031231.1__YP_009301313.1__BJD78_gp56__00056

Identity

Accession:
NC_031231 ↗
Kingdom:
phage

Quality

75.1 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 1-62
PDB
Domain cluster: representative
CATH (61)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.93 71.0 6.03e-01 79.0% 53.3%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.92 69.0 6.43e-01 82.3% 65.3%
1cpqA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.91 74.0 5.65e-01 91.9% 41.1%
3gw4A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.91 61.0 4.13e-01 72.6% 22.4%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.91 67.0 7.31e-01 80.6% 92.3%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.91 72.0 5.75e-01 83.9% 46.0%
3ihuA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.91 66.0 4.89e-01 79.0% 33.8%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.90 64.0 7.36e-01 74.2% 100.0%
1bbhA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.90 72.0 5.44e-01 90.3% 39.7%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.89 70.0 6.26e-01 82.3% 62.2%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.89 68.0 6.48e-01 80.6% 100.0%
3k17A02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.88 71.0 5.30e-01 85.5% 37.9%
3gonA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.88 63.0 4.71e-01 74.2% 34.3%
1cgnA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.88 74.0 5.69e-01 91.9% 44.4%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.87 80.0 6.26e-01 100.0% 83.9%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.87 75.0 6.06e-01 95.2% 55.2%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.87 78.0 5.63e-01 98.4% 38.0%
6a3kA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.86 71.0 5.44e-01 93.5% 41.9%
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 0.86 64.0 6.90e-01 79.0% 98.1%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.86 65.0 6.01e-01 80.6% 64.5%
2v5cA03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.85 70.0 5.41e-01 91.9% 42.3%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.85 66.0 5.53e-01 82.3% 51.0%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.85 64.0 5.97e-01 80.6% 65.8%
3bqoA00 1.25.40.210 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Telomere repeat-binding factor, dimerisation domain 0.84 68.0 4.60e-01 85.5% 26.2%
1x04A00 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 5.18e-01 100.0% 38.0%
3tulB00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.83 75.0 5.78e-01 100.0% 49.6%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.83 70.0 5.19e-01 91.9% 38.3%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 75.0 5.66e-01 100.0% 45.4%
3iq1B00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.82 74.0 5.39e-01 98.4% 39.0%
4uskA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.82 60.0 4.44e-01 80.6% 31.2%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.82 74.0 6.77e-01 100.0% 95.0%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 73.0 7.08e-01 98.4% 89.9%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.81 73.0 6.45e-01 100.0% 83.3%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.81 70.0 6.90e-01 96.8% 100.0%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.81 72.0 7.28e-01 100.0% 100.0%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.80 71.0 6.04e-01 100.0% 63.7%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.80 63.0 5.01e-01 85.5% 43.8%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 71.0 5.13e-01 100.0% 36.6%
2zueA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.79 62.0 4.91e-01 98.4% 43.7%
3fxdC00 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 0.78 55.0 5.90e-01 82.3% 92.0%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 66.0 6.33e-01 95.2% 90.4%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.78 68.0 5.34e-01 98.4% 67.7%
3etuA01 1.10.287.3290 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 64.0 6.29e-01 91.9% 84.6%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.77 66.0 5.82e-01 98.4% 64.8%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.77 67.0 6.33e-01 100.0% 85.3%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.76 66.0 4.81e-01 100.0% 42.3%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.76 60.0 5.61e-01 95.2% 70.1%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.76 65.0 5.00e-01 100.0% 57.8%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.75 63.0 6.46e-01 98.4% 96.7%
1rv2D04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.75 65.0 6.28e-01 100.0% 91.4%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.74 58.0 5.91e-01 96.8% 93.2%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.73 61.0 6.11e-01 91.9% 90.6%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.73 54.0 5.41e-01 83.9% 76.6%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.72 61.0 5.61e-01 100.0% 80.0%
4uqxA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.72 48.0 4.36e-01 77.4% 49.4%
1iq0A03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.71 57.0 4.69e-01 90.3% 47.4%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.71 64.0 6.02e-01 100.0% 86.5%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 60.0 5.89e-01 93.5% 89.6%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.69 58.0 5.59e-01 93.5% 100.0%
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.66 51.0 5.52e-01 87.1% 100.0%
1dd3A01 1.20.5.710 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Single helix bin 0.64 43.0 4.49e-01 80.6% 78.9%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4489484 2002.1.1.30 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.94 89.0 5.17e-01 100.0% 14.4%
3965106 605.1.1.4 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.93 87.0 8.10e-01 100.0% 84.0%
4930198 605.1.1.2 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.93 77.0 7.82e-01 87.1% 90.0%
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 0.92 77.0 8.13e-01 88.7% 100.0%
4966900 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 0.92 71.0 6.98e-01 80.6% 76.9%
3806239 616.1.1.0 alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.91 68.0 6.28e-01 80.6% 64.0%
3560750 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.91 84.0 7.99e-01 100.0% 87.1%
3666875 1025.1.1.4 alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › DUF641 0.91 82.0 7.63e-01 96.8% 80.0%
3410968 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.90 82.0 7.85e-01 96.8% 88.6%
3296414 192.29.1.168 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF641 0.90 82.0 7.86e-01 98.4% 87.1%
3451935 192.8.1.359 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF641 0.90 75.0 7.89e-01 93.5% 100.0%
3336677 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.89 80.0 7.43e-01 96.8% 82.7%
3802185 192.8.1.359 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › DUF641 0.89 82.0 7.83e-01 100.0% 91.4%
3389416 140.1.1.0 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.88 69.0 5.74e-01 82.3% 51.0%
5081307 159.1.2.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related › PRA-PH 0.88 64.0 5.54e-01 77.4% 51.6%
4477580 5086.1.1.118 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › BBS2_hp 0.88 81.0 7.18e-01 100.0% 75.3%
5043430 6155.1.1.0 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter 0.87 69.0 6.43e-01 85.5% 69.3%
140767 632.8.1.3 alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › DUF6853 0.87 80.0 6.26e-01 100.0% 83.9%
3232875 11.2.1.7 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › Anillin 0.87 79.0 5.30e-01 100.0% 29.1%
3809308 3826.1.1.66 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › DUF641 0.86 77.0 7.83e-01 98.4% 100.0%
5025189 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.86 71.0 7.53e-01 90.3% 100.0%
5013157 4163.1.1.0 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.86 80.0 6.09e-01 100.0% 47.7%
4874836 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.86 78.0 6.60e-01 100.0% 69.7%
4992964 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.85 76.0 7.30e-01 98.4% 85.7%
3520009 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.85 77.0 7.07e-01 100.0% 93.8%
3230315 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.85 78.0 6.44e-01 100.0% 60.0%
5042769 632.11.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DUF357 0.85 68.0 5.92e-01 85.5% 58.9%
3972329 633.5.1.0 alpha bundles › Bromodomain-like › LemA-like › LemA-like 0.84 75.0 5.38e-01 96.8% 86.7%
3643501 192.1.1.47 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › DUF641 0.84 76.0 7.51e-01 98.4% 93.8%
3738041 192.5.1.1 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1 0.84 77.0 6.87e-01 100.0% 75.3%
3671241 109.4.1.128 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MIF4G_like_2 0.84 76.0 4.76e-01 100.0% 20.6%
4940322 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.84 74.0 6.54e-01 100.0% 68.9%
4347101 5086.1.1.119 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › RRG1_C 0.83 76.0 6.61e-01 100.0% 68.9%
3837815 2004.1.1.433 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_23 0.82 75.0 4.21e-01 100.0% 9.9%
4930709 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.81 74.0 5.12e-01 100.0% 32.3%
3620592 6155.1.1.15 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › DUF846 0.81 69.0 5.22e-01 93.5% 40.7%
4988301 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.80 71.0 5.32e-01 100.0% 42.7%
4386662 3291.1.1.158 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Seryl_tRNA_N 0.79 71.0 5.78e-01 100.0% 55.7%
4942288 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.79 70.0 5.92e-01 98.4% 62.0%
3477749 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.76 65.0 6.28e-01 93.5% 82.9%
3802332 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.76 66.0 5.69e-01 100.0% 93.0%
2750143 3758.1.1.1 alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › Bacillus_HBL 0.74 63.0 4.61e-01 100.0% 34.6%
3695977 3922.1.1.133 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 › PRM1 0.71 61.0 5.21e-01 100.0% 92.4%