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MK448355.1__QBX07891.1__JavanS2_0011__00005

Bact-Vir

MK448355.1__QBX07891.1__JavanS2_0011__00005

Identity

Accession:
MK448355 ↗
Kingdom:
phage

Quality

76.6 mean pLDDT

Taxonomy

TaxID: 2558562

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 19-72
PDB
Domain cluster: representative
CATH (59)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3r6nA02 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.92 85.0 5.94e-01 100.0% 35.5%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.86 73.0 6.24e-01 90.7% 62.2%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.85 72.0 6.90e-01 92.6% 82.3%
4fymF00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.84 72.0 4.75e-01 94.4% 30.1%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 74.0 5.80e-01 100.0% 51.3%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.83 74.0 5.50e-01 100.0% 74.8%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 75.0 6.75e-01 100.0% 81.9%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.82 75.0 6.90e-01 100.0% 88.2%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.82 64.0 6.78e-01 85.2% 100.0%
3ihuA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.82 67.0 4.85e-01 90.7% 34.5%
1p49A02 1.10.287.550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.81 64.0 6.30e-01 88.9% 100.0%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.80 66.0 4.97e-01 90.7% 84.4%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.80 70.0 6.34e-01 100.0% 74.7%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.80 64.0 5.79e-01 92.6% 64.0%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.80 61.0 6.37e-01 85.2% 95.8%
1gqeA01 1.20.58.410 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Release factor 0.80 66.0 5.18e-01 92.6% 45.1%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 69.0 6.43e-01 100.0% 81.2%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.80 69.0 6.50e-01 100.0% 82.1%
3nkzA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.79 67.0 5.62e-01 98.1% 56.7%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.78 66.0 4.69e-01 100.0% 32.0%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 67.0 5.54e-01 98.1% 54.6%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.77 67.0 6.53e-01 100.0% 93.3%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 67.0 6.47e-01 100.0% 90.3%
4x5mA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.76 64.0 5.59e-01 100.0% 61.6%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.76 62.0 5.46e-01 100.0% 61.0%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 63.0 5.91e-01 100.0% 78.9%
4bx8A03 3.90.830.10 Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a 0.75 65.0 5.25e-01 100.0% 51.9%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.75 62.0 5.81e-01 92.6% 75.8%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.75 64.0 4.65e-01 96.3% 35.8%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.75 64.0 5.37e-01 100.0% 55.7%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.74 63.0 5.97e-01 100.0% 85.1%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.74 65.0 5.98e-01 100.0% 88.7%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.74 56.0 5.73e-01 87.0% 88.5%
4hb1A00 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 0.74 54.0 5.78e-01 81.5% 100.0%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.73 61.0 6.32e-01 98.1% 100.0%
2c41C01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 62.0 4.56e-01 100.0% 36.9%
2qtfA02 6.10.250.2860 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.72 54.0 5.72e-01 85.2% 97.9%
1cpyA02 1.10.287.410 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.72 56.0 5.19e-01 90.7% 66.7%
1rv2D04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.71 61.0 5.66e-01 100.0% 78.6%
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 0.71 51.0 5.19e-01 79.6% 84.6%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 60.0 5.93e-01 100.0% 91.4%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.70 55.0 5.05e-01 90.7% 67.1%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 55.0 5.25e-01 100.0% 75.0%
2wzkA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.69 58.0 4.34e-01 90.7% 44.9%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.69 59.0 5.10e-01 100.0% 59.3%
3r2qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.69 58.0 4.68e-01 100.0% 48.7%
1hr5A00 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 0.68 53.0 5.48e-01 92.6% 100.0%
2gw1A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 54.0 3.29e-01 90.7% 13.1%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.67 56.0 5.10e-01 100.0% 69.7%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 54.0 5.21e-01 100.0% 80.0%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 54.0 5.04e-01 100.0% 71.2%
2uv8A07 6.10.140.1410 Special › Helix non-globular › Helix Hairpins › 0.67 60.0 5.12e-01 100.0% 63.5%
2vkzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.67 60.0 3.80e-01 100.0% 20.6%
3rm5B02 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.66 55.0 3.76e-01 100.0% 25.4%
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 0.65 49.0 4.97e-01 88.9% 96.0%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.64 57.0 5.61e-01 100.0% 93.0%
1kaeA03 1.20.5.1300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.61 43.0 4.32e-01 75.9% 85.5%
2k3qA00 1.10.274.70 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, N-terminal domain 0.61 48.0 3.84e-01 94.4% 41.5%
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.61 47.0 4.85e-01 85.2% 96.2%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3262638 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.92 84.0 6.62e-01 100.0% 52.4%
3971809 192.8.1.424 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › H-kinase_dim 0.91 75.0 7.46e-01 87.0% 89.1%
3375617 192.5.1.30 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › DUF641 0.88 81.0 6.98e-01 100.0% 70.0%
5016327 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 0.88 76.0 6.91e-01 94.4% 75.7%
3666875 1025.1.1.4 alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › DUF641 0.88 79.0 7.05e-01 100.0% 74.7%
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 0.87 80.0 7.45e-01 100.0% 86.2%
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 0.87 75.0 7.53e-01 94.4% 94.5%
3578466 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.87 73.0 6.36e-01 92.6% 65.0%
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 0.87 78.0 7.12e-01 100.0% 78.6%
4859903 304.116.1.1 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in release factor › Ferredoxin-like domain in release factor › PCRF 0.86 78.0 5.95e-01 100.0% 47.1%
5024703 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.86 78.0 5.22e-01 100.0% 28.9%
3542527 5020.1.1.8 extended segments › Subunit VIII of photosystem I reaction centre, PsaI › Subunit VIII of photosystem I reaction centre, PsaI › Subunit VIII of photosystem I reaction centre, PsaI › TB2_DP1_HVA22 0.86 77.0 6.58e-01 100.0% 67.1%
5031855 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.86 73.0 6.33e-01 92.6% 62.5%
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 0.85 76.0 6.97e-01 100.0% 78.6%
4212526 4006.1.1.1 alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.85 76.0 5.81e-01 100.0% 45.8%
4936633 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.85 76.0 5.05e-01 100.0% 27.8%
4406698 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.84 70.0 5.78e-01 92.6% 94.7%
3738041 192.5.1.1 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat › HR1 0.83 73.0 6.31e-01 100.0% 65.9%
5044927 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 0.83 72.0 6.96e-01 98.1% 88.3%
4963289 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.83 73.0 4.97e-01 100.0% 30.0%
4384750 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.82 69.0 5.68e-01 92.6% 94.7%
3699098 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.82 71.0 6.21e-01 100.0% 65.0%
3559003 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.81 71.0 5.83e-01 100.0% 95.0%
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 0.81 71.0 6.40e-01 100.0% 74.7%
3590755 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 0.81 71.0 6.86e-01 100.0% 90.0%
4798159 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.80 69.0 6.26e-01 100.0% 73.7%
4784166 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.80 70.0 6.48e-01 100.0% 88.6%
4960168 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.80 70.0 4.99e-01 100.0% 33.3%
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 0.80 70.0 6.31e-01 100.0% 76.0%
437078 3713.1.1.1 alpha bundles › Small terminase central domain › Small terminase central domain › Small terminase central domain › DNA_Packaging 0.80 70.0 5.94e-01 100.0% 61.5%
57654 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 0.80 68.0 6.89e-01 98.1% 98.1%
4949471 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.80 70.0 4.87e-01 100.0% 33.1%
3487862 212.1.1.0 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.79 70.0 4.53e-01 100.0% 25.8%
3614078 3922.1.1.0 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 0.79 69.0 5.29e-01 100.0% 44.2%
4945931 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.78 68.0 6.25e-01 100.0% 75.7%
4165434 192.6.1.1 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE 0.78 61.0 6.35e-01 85.2% 92.0%
3744275 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.77 66.0 5.73e-01 100.0% 62.4%
4018440 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.76 65.0 5.45e-01 100.0% 55.8%
2323907 212.1.1.24 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 0.76 66.0 4.35e-01 100.0% 24.2%
3491418 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.75 64.0 5.85e-01 100.0% 73.3%
3619577 192.5.1.0 alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.75 64.0 5.49e-01 100.0% 63.3%
4831662 5043.1.1.1 extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like › Htr2 0.74 65.0 6.12e-01 100.0% 87.9%
3965569 150.1.1.183 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Transposase_20 0.74 62.0 4.42e-01 100.0% 31.7%
4953182 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.73 64.0 4.46e-01 100.0% 31.7%
3273862 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.73 61.0 5.21e-01 100.0% 60.0%
4253651 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.72 59.0 5.27e-01 100.0% 67.1%
3663959 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.72 63.0 4.75e-01 100.0% 43.8%
3477749 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.72 61.0 5.69e-01 100.0% 81.4%
3487203 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.71 59.0 5.26e-01 100.0% 87.1%
4041347 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.70 58.0 4.78e-01 100.0% 51.8%
3520009 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.68 56.0 5.10e-01 100.0% 67.5%