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RTP_09252017_15_scaffold_29_prodigal-single.1__X__X__00321

Bact-Vir

RTP_09252017_15_scaffold_29_prodigal-single.1__X__X__00321

Identity

Kingdom:
phage

Quality

91.7 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 35-118
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.78 49.0 5.24e-01 88.1% 72.0%
3lnnB03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 48.0 5.25e-01 85.7% 86.6%
6v9zA02 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.68 55.0 3.71e-01 88.1% 55.1%
4x5mA00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.68 50.0 5.03e-01 92.9% 75.6%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.66 51.0 4.94e-01 85.7% 71.9%
2qwtA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.66 46.0 3.66e-01 71.4% 86.8%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 44.0 4.73e-01 85.7% 80.6%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.66 54.0 5.05e-01 85.7% 84.8%
1ykhA00 6.10.140.200 Special › Helix non-globular › Helix Hairpins › 0.64 46.0 4.38e-01 81.0% 65.3%
1y0uA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 46.0 4.59e-01 77.4% 83.1%
1wjtA00 1.20.930.10 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 0.63 33.0 3.16e-01 83.3% 39.8%
2y44A00 1.20.1260.80 Mainly Alpha › Up-down Bundle › Ferritin › 0.62 50.0 3.84e-01 85.7% 53.8%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 48.0 4.47e-01 85.7% 67.0%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.61 53.0 5.22e-01 91.7% 97.8%
2dw4A03 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.61 51.0 4.73e-01 86.9% 72.3%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.61 55.0 4.47e-01 95.2% 75.9%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.61 41.0 4.48e-01 85.7% 90.6%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.60 50.0 4.46e-01 86.9% 64.9%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 47.0 3.84e-01 90.5% 45.5%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.60 52.0 5.23e-01 91.7% 100.0%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.60 47.0 4.86e-01 85.7% 87.3%
4al0A00 1.20.120.550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain 0.60 50.0 4.15e-01 90.5% 82.9%
5xsoA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.59 42.0 4.40e-01 75.0% 96.1%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 47.0 4.37e-01 86.9% 68.6%
1gqeA01 1.20.58.410 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Release factor 0.59 49.0 4.47e-01 92.9% 88.5%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.59 50.0 3.88e-01 91.7% 58.9%
1gaxA05 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.58 48.0 5.21e-01 86.9% 100.0%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.58 48.0 4.83e-01 88.1% 90.7%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 45.0 4.72e-01 81.0% 90.9%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 50.0 4.76e-01 91.7% 86.5%
3g67A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.57 47.0 3.41e-01 86.9% 46.0%
2fgeA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.57 42.0 3.05e-01 79.8% 82.0%
4lunU00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.57 46.0 3.17e-01 90.5% 71.1%
3fppA03 6.10.140.1990 Special › Helix non-globular › Helix Hairpins › 0.56 45.0 4.49e-01 85.7% 83.0%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 44.0 3.99e-01 85.7% 62.7%
1e6dM01 1.20.85.10 Mainly Alpha › Up-down Bundle › Photosynthetic Reaction Center, subunit M; domain 1 › Photosystem II protein D1-like 0.56 44.0 3.70e-01 84.5% 59.4%
3pltA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 47.0 3.47e-01 92.9% 68.7%
1qb2A00 1.10.260.30 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › Signal recognition particle, SRP54 subunit, M-domain 0.55 41.0 3.84e-01 79.8% 70.8%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 43.0 3.95e-01 84.5% 66.1%
2q9rA01 1.20.1590.10 Mainly Alpha › Up-down Bundle › YP_001051499.1 fold like › YP_001051499.1 domain like 0.55 44.0 3.48e-01 90.5% 52.8%
1kf6C00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.54 43.0 3.79e-01 86.9% 74.6%
3vbbE01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.54 43.0 3.88e-01 86.9% 69.7%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.54 41.0 4.34e-01 86.9% 92.0%
2gl2B00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 42.0 3.91e-01 85.7% 72.5%
2g3vA00 1.20.120.1140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CAG pathogenicity island protein 13, CagS 0.54 50.0 3.93e-01 98.8% 83.2%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 42.0 3.95e-01 85.7% 71.4%
1w9rA00 1.20.58.440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › choline binding protein A 0.52 44.0 3.97e-01 94.0% 66.4%
2lw1A00 1.10.287.380 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Valyl-tRNA synthetase, C-terminal domain 0.52 41.0 4.12e-01 86.9% 85.9%
2ymvA02 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.50 46.0 3.34e-01 100.0% 46.0%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.50 43.0 3.62e-01 96.4% 66.0%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3476064 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.80 46.0 4.03e-01 86.9% 40.8%
3377936 3922.1.1.173 ↗ 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 › DUF3493 0.78 50.0 5.03e-01 86.9% 64.7%
3615380 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.77 46.0 4.72e-01 85.7% 62.5%
3486312 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.77 45.0 3.95e-01 86.9% 41.2%
4385544 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 0.75 52.0 5.49e-01 85.7% 78.7%
3728170 3324.1.1.2 ↗ extended segments › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases 0.75 62.0 5.24e-01 86.9% 93.8%
3921802 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 0.73 45.0 3.55e-01 86.9% 31.5%
4164723 101.1.2.598 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, POLR3C_WHD 0.70 51.0 3.19e-01 85.7% 14.6%
3787859 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.67 51.0 4.33e-01 82.1% 80.7%
3731488 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.66 49.0 4.50e-01 85.7% 59.1%
2429105 4992.1.1.0 ↗ extended segments › RelB-like › RelB-like › RelB-like 0.65 49.0 5.27e-01 86.9% 89.2%
3494616 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.65 53.0 5.31e-01 90.5% 85.9%
3611289 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.63 53.0 4.36e-01 89.3% 92.4%
4042007 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.63 51.0 4.58e-01 84.5% 71.8%
5047149 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.63 51.0 3.95e-01 85.7% 95.3%
3741614 101.1.2.236 ↗ alpha arrays › HTH › HTH › winged helix domain › POLR3C_WHD 0.63 51.0 4.06e-01 88.1% 90.9%
4429194 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.63 51.0 4.56e-01 84.5% 71.8%
4147453 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.62 51.0 4.56e-01 84.5% 70.9%
4927671 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 0.62 51.0 3.68e-01 86.9% 56.9%
4043484 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.62 51.0 4.62e-01 85.7% 71.8%
4601944 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 0.62 51.0 5.43e-01 85.7% 96.0%
4424778 605.2.1.3 ↗ alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.62 50.0 4.54e-01 84.5% 71.8%
4234530 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.62 50.0 4.43e-01 84.5% 71.3%
4110549 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.62 50.0 4.50e-01 84.5% 70.9%
4095698 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 0.62 50.0 4.56e-01 89.3% 85.2%
3197615 3755.3.1.355 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Uds1 0.61 51.0 4.33e-01 86.9% 58.4%
3240682 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.61 51.0 4.55e-01 86.9% 66.4%
5047670 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.60 50.0 3.61e-01 86.9% 34.0%
4300676 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.60 49.0 4.44e-01 85.7% 71.8%
3742795 7022.1.1.1 ↗ alpha bundles › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › central core domain of D-alanyl transfer protein › MBOAT 0.59 52.0 4.39e-01 94.0% 70.4%
3680604 246.3.1.17 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › PF27823 0.59 47.0 3.18e-01 85.7% 24.6%
4496877 3755.3.1.284 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Utp11 0.59 52.0 4.31e-01 91.7% 65.2%
3971758 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.59 48.0 4.78e-01 85.7% 85.9%
3282043 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.59 48.0 4.81e-01 86.9% 85.9%
4933825 5058.1.1.16 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.59 47.0 4.41e-01 84.5% 73.0%
1632108 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 0.58 47.0 4.59e-01 86.9% 79.3%
4939228 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 0.58 45.0 4.92e-01 88.1% 97.1%
3281127 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.58 47.0 4.63e-01 86.9% 81.1%
1647796 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.57 46.0 4.45e-01 85.7% 79.3%
2067201 5086.1.1.84 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_MFP_RND 0.55 44.0 4.61e-01 85.7% 93.5%
5033071 5058.1.1.16 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st_1 0.55 43.0 4.05e-01 83.3% 72.0%
4470267 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.54 43.0 3.96e-01 85.7% 65.5%
4654983 605.2.1.3 ↗ alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 › Seryl_tRNA_N 0.54 42.0 3.91e-01 85.7% 65.5%
3883667 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.53 43.0 4.07e-01 89.3% 86.7%
4057547 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.53 42.0 3.84e-01 85.7% 65.5%
3945729 604.32.1.0 ↗ alpha bundles › Spectrin repeat-like › Recombination protein uvsY › Recombination protein uvsY 0.53 43.0 3.78e-01 91.7% 88.5%
3737668 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.52 42.0 3.83e-01 89.3% 68.7%
3704884 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 41.0 3.03e-01 85.7% 34.2%