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NC_000867.1__NP_049897.1__PM2_08__00008

Bact-Vir

NC_000867.1__NP_049897.1__PM2_08__00008

Identity

Accession:
NC_000867 ↗
Kingdom:
phage

Quality

95.0 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 3-63
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.95 90.0 7.23e-01 100.0% 62.3%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.95 89.0 5.75e-01 100.0% 26.2%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.91 84.0 5.62e-01 100.0% 31.4%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.91 81.0 7.73e-01 95.1% 89.9%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.90 83.0 7.28e-01 100.0% 79.5%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.89 72.0 7.16e-01 85.2% 90.3%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.89 63.0 6.84e-01 73.8% 96.1%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.88 60.0 4.91e-01 77.0% 41.7%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.88 81.0 6.70e-01 100.0% 63.7%
1vcsA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.88 72.0 5.99e-01 88.5% 52.9%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.88 66.0 6.20e-01 80.3% 68.9%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.86 69.0 5.03e-01 86.9% 34.7%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.86 74.0 6.81e-01 93.4% 77.9%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 75.0 5.96e-01 100.0% 60.7%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.84 67.0 6.16e-01 88.5% 67.9%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.83 77.0 6.35e-01 100.0% 59.8%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.83 68.0 5.87e-01 88.5% 60.4%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.82 71.0 4.38e-01 95.1% 18.7%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 56.0 5.57e-01 70.5% 68.3%
2gsqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.82 64.0 5.29e-01 85.2% 49.1%
6f1eA01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.81 58.0 4.39e-01 77.0% 33.1%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.80 63.0 5.82e-01 100.0% 67.1%
4gczA03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.78 64.0 6.31e-01 95.1% 86.2%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.78 64.0 5.88e-01 95.1% 68.3%
4bx8A03 3.90.830.10 Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a 0.78 58.0 4.74e-01 78.7% 53.7%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 70.0 6.33e-01 100.0% 75.9%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.78 68.0 5.81e-01 98.4% 60.6%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.78 58.0 5.90e-01 85.2% 83.1%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.77 64.0 6.18e-01 91.8% 83.8%
8a1gC01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.77 67.0 4.82e-01 100.0% 34.3%
2acxA01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.74 54.0 3.70e-01 77.0% 22.9%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 66.0 6.12e-01 100.0% 82.1%
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 0.74 63.0 4.46e-01 100.0% 32.5%
3nkzA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.71 65.0 5.47e-01 100.0% 79.4%
1aj3A00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 58.0 5.03e-01 95.1% 62.2%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.68 61.0 5.61e-01 100.0% 76.2%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.68 58.0 4.95e-01 100.0% 65.7%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 45.0 4.32e-01 72.1% 60.8%
3o2tA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.64 52.0 3.38e-01 95.1% 34.5%
2vx2G02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.61 43.0 4.50e-01 77.0% 100.0%
2x6hA03 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.61 44.0 3.13e-01 80.3% 24.0%
3h6pC00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 49.0 5.13e-01 90.2% 98.2%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.60 44.0 4.49e-01 88.5% 86.7%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3927560 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 1.00 86.0 8.69e-01 91.8% 90.0%
4266268 192.8.1.376 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › RRP36 0.97 92.0 6.60e-01 100.0% 40.7%
4026159 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 0.97 70.0 7.78e-01 75.4% 92.0%
3497911 633.23.1.0 alpha bundles › Bromodomain-like › Claudin › Claudin 0.94 88.0 6.58e-01 100.0% 45.2%
4405928 5086.1.1.196 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YknX 0.94 82.0 7.82e-01 93.4% 81.4%
4966215 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.93 87.0 6.12e-01 100.0% 37.0%
3745112 3755.3.1.298 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › ING 0.93 87.0 6.72e-01 100.0% 54.2%
4473674 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.92 85.0 6.79e-01 98.4% 54.5%
4943086 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.92 70.0 6.67e-01 80.3% 70.0%
3298709 605.1.1.141 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Rx_N 0.92 86.0 6.58e-01 100.0% 48.8%
3275930 4177.1.1.5 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.92 85.0 5.47e-01 100.0% 24.8%
4017817 3922.1.1.229 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 › Cep57_MT_bd 0.92 84.0 6.25e-01 98.4% 45.7%
3170876 192.7.1.30 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › CUX1_N 0.91 84.0 6.65e-01 100.0% 53.0%
3349516 3939.1.1.0 alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.91 83.0 5.04e-01 100.0% 17.4%
3720211 4207.1.1.0 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) 0.91 83.0 7.38e-01 100.0% 72.9%
3614667 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.91 70.0 4.24e-01 85.2% 14.5%
3989466 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.91 83.0 4.67e-01 100.0% 9.8%
3908132 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.90 84.0 5.37e-01 100.0% 24.4%
3574797 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 0.90 63.0 5.65e-01 72.1% 55.0%
3784740 3712.1.1.1 a+b complex topology › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Mediator of RNA polymerase II transcription subunit 11 › Med11 0.90 77.0 7.16e-01 91.8% 80.0%
3614068 5055.1.1.0 extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.90 83.0 7.50e-01 100.0% 76.2%
3916825 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.90 83.0 6.05e-01 100.0% 41.3%
5012794 4333.1.1.0 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.90 82.0 4.96e-01 100.0% 17.2%
3218879 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 0.89 70.0 7.10e-01 83.6% 85.0%
3349325 5086.1.1.135 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › DUF7615 0.89 80.0 7.19e-01 96.7% 72.5%
4056724 192.6.1.0 alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain 0.89 61.0 6.94e-01 70.5% 95.6%
3599032 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.89 82.0 5.34e-01 98.4% 27.0%
3917938 4177.1.1.5 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › Vps5 0.89 82.0 5.45e-01 100.0% 28.8%
4984327 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.88 80.0 6.62e-01 100.0% 58.1%
3336158 70.3.1.0 beta barrels › beta-clip › SET domain-like › SET domain-like 0.88 69.0 5.08e-01 88.5% 34.5%
3526861 603.1.1.99 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27021 0.88 80.0 6.50e-01 100.0% 55.5%
3591288 604.12.1.8 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › KATNA1_MIT 0.88 75.0 5.79e-01 95.1% 44.8%
3512620 3755.4.1.1 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › PI3K_P85_iSH2 0.88 80.0 5.79e-01 100.0% 38.7%
4336724 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.87 80.0 6.47e-01 100.0% 55.5%
3715996 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 0.87 64.0 6.93e-01 77.0% 94.0%
4220356 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.87 80.0 4.87e-01 100.0% 18.5%
3286299 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.86 79.0 6.37e-01 100.0% 55.5%
4572664 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.86 66.0 6.33e-01 82.0% 71.4%
3731974 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.86 77.0 6.31e-01 100.0% 55.5%
5057329 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.86 79.0 5.83e-01 100.0% 42.8%
4039014 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.86 78.0 6.31e-01 100.0% 55.5%
3240634 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.85 77.0 5.65e-01 100.0% 39.4%
3681259 5058.1.1.57 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › V-SNARE 0.85 69.0 6.13e-01 91.8% 63.5%
3393794 3922.1.1.211 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 › DRC7_C 0.84 77.0 5.86e-01 100.0% 65.2%
3700672 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.84 76.0 6.11e-01 100.0% 53.9%
3962893 150.5.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.84 75.0 6.48e-01 100.0% 64.2%
3450594 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.84 77.0 6.43e-01 100.0% 63.0%
3194783 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 0.84 60.0 4.79e-01 78.7% 40.0%
3596375 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.82 74.0 5.78e-01 100.0% 49.6%
4780326 601.19.1.0 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein 0.82 75.0 5.16e-01 100.0% 34.4%
3244591 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.82 74.0 5.39e-01 100.0% 40.6%
4671 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.82 72.0 5.85e-01 98.4% 53.6%
3730806 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.81 63.0 4.97e-01 86.9% 41.6%
3864552 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.81 71.0 6.01e-01 98.4% 66.0%
3791628 1203.1.2.0 alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 0.80 73.0 5.44e-01 100.0% 42.8%
1821875 4970.1.1.1 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 › DNA_pol_B 0.78 56.0 5.73e-01 78.7% 79.7%
3505389 2004.1.1.144 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD_2 0.76 66.0 4.07e-01 100.0% 17.8%
3712097 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 0.74 62.0 5.53e-01 96.7% 66.7%