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SRR1747040_scaffold_2_curated_closed_complete_prodigal-single.1__X__X__00207

Bact-Vir

SRR1747040_scaffold_2_curated_closed_complete_prodigal-single.1__X__X__00207

Identity

Kingdom:
phage

Quality

52.4 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 73-122
PDB
Domain cluster: representative
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ig3A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.88 73.0 5.30e-01 92.0% 35.4%
3vm9A02 6.10.140.2110 Special › Helix non-globular › Helix Hairpins › 0.87 75.0 7.18e-01 96.0% 91.2%
2j5iA02 6.10.250.2850 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.85 61.0 6.65e-01 76.0% 100.0%
5z7rA02 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 0.84 64.0 6.40e-01 84.0% 78.8%
4fzwA02 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 0.84 66.0 6.25e-01 84.0% 72.4%
4jylA02 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 0.83 66.0 6.67e-01 84.0% 85.7%
1dciA02 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 0.83 62.0 5.75e-01 84.0% 63.5%
3besR03 6.10.140.1480 Special › Helix non-globular › Helix Hairpins › 0.83 69.0 6.71e-01 96.0% 83.9%
4di1C02 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 0.81 61.0 6.56e-01 82.0% 100.0%
2f93B00 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.80 69.0 6.93e-01 100.0% 98.0%
7metA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.79 68.0 4.19e-01 100.0% 19.4%
3q5dA02 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.79 69.0 5.56e-01 100.0% 51.5%
4og1A02 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 0.79 60.0 5.72e-01 84.0% 70.7%
3k2jA00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.79 61.0 4.53e-01 84.0% 98.3%
3qkaE02 1.10.287.2460 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 54.0 5.72e-01 78.0% 86.0%
1jxzC02 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 0.77 57.0 5.40e-01 96.0% 66.7%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.77 64.0 5.74e-01 100.0% 65.8%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.75 65.0 6.00e-01 100.0% 93.8%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.75 63.0 4.62e-01 94.0% 36.1%
5ffdA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 54.0 3.92e-01 78.0% 28.5%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 59.0 5.59e-01 86.0% 78.3%
2wl8C00 1.20.120.900 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pex19, mPTS binding domain 0.74 56.0 4.40e-01 84.0% 38.5%
4lunU00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.73 54.0 3.24e-01 78.0% 16.4%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 56.0 5.26e-01 82.0% 76.3%
2e9xB02 1.20.58.1020 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 55.0 4.25e-01 82.0% 38.5%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.72 57.0 5.07e-01 86.0% 62.0%
2nx4C00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.72 60.0 4.05e-01 94.0% 27.8%
1n1cA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.71 55.0 4.72e-01 86.0% 52.4%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.70 55.0 4.48e-01 86.0% 46.2%
2xvtC00 1.10.150.510 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Receptor activity modifying family 0.70 56.0 4.94e-01 100.0% 59.5%
1vfiA00 1.10.246.100 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Vanadium-binding protein 2 0.69 60.0 4.93e-01 100.0% 75.8%
4oe8C00 1.10.8.1170 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.69 60.0 4.98e-01 98.0% 79.3%
3rlfF01 1.20.58.370 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › MalF N-terminal region-like 0.69 57.0 4.90e-01 98.0% 59.3%
1tjlA00 1.20.120.910 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › DksA, coiled-coil domain 0.68 58.0 4.12e-01 94.0% 33.8%
4adnA01 1.20.1280.250 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.68 53.0 4.48e-01 86.0% 50.6%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.68 55.0 4.74e-01 96.0% 55.4%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 56.0 3.60e-01 94.0% 28.0%
1d2mA03 6.10.140.240 Special › Helix non-globular › Helix Hairpins › 0.67 56.0 5.19e-01 98.0% 72.7%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.67 53.0 4.03e-01 86.0% 37.4%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.67 54.0 3.95e-01 94.0% 40.1%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.66 55.0 4.76e-01 90.0% 66.7%
3tklB01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 55.0 5.15e-01 94.0% 85.5%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.65 55.0 4.19e-01 96.0% 40.2%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.65 57.0 5.12e-01 94.0% 74.2%
2kwhA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 53.0 5.16e-01 92.0% 92.9%
3sfvB02 6.10.140.2010 Special › Helix non-globular › Helix Hairpins › 0.65 57.0 3.82e-01 100.0% 40.5%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.65 55.0 4.98e-01 94.0% 73.1%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.65 54.0 4.83e-01 96.0% 64.8%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.64 55.0 4.93e-01 96.0% 72.9%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 53.0 4.27e-01 100.0% 51.9%
7t7kA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.63 51.0 4.08e-01 100.0% 70.3%
4kw3A00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.62 53.0 3.39e-01 100.0% 46.6%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.61 53.0 5.02e-01 100.0% 82.0%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.60 54.0 4.69e-01 100.0% 97.3%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.60 50.0 4.65e-01 100.0% 74.6%
1skvA00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.60 51.0 4.78e-01 98.0% 98.4%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3990466 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.89 80.0 6.64e-01 100.0% 60.0%
4286282 507.1.1.1 ↗ alpha arrays › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB 0.88 79.0 5.42e-01 100.0% 35.6%
4937584 5058.1.1.0 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.87 78.0 6.78e-01 100.0% 68.0%
None — 0.87 78.0 4.82e-01 100.0% 19.6%
4179286 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.86 78.0 6.49e-01 100.0% 63.5%
4988487 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.85 77.0 6.55e-01 100.0% 68.4%
5066732 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.84 74.0 4.72e-01 100.0% 22.1%
3244309 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.84 73.0 4.59e-01 96.0% 19.6%
4957365 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.83 72.0 5.60e-01 100.0% 50.0%
197868 614.1.1.0 ↗ alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain 0.83 69.0 6.93e-01 96.0% 92.2%
4075392 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.82 72.0 4.53e-01 100.0% 20.4%
5054424 5058.1.1.2 ↗ 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 0.82 70.0 6.08e-01 100.0% 63.7%
5072135 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.79 66.0 4.50e-01 100.0% 26.7%
3770340 5041.1.1.2 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › TMEM169 0.78 67.0 5.32e-01 100.0% 53.3%
3539986 5058.1.1.90 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › TMEM169 0.78 66.0 5.90e-01 100.0% 74.7%
3417201 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.77 66.0 4.52e-01 96.0% 28.0%
3973864 6026.1.1.2 ↗ alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › GlpM 0.77 67.0 5.22e-01 100.0% 45.9%
4323124 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.76 65.0 3.97e-01 100.0% 15.2%
3462586 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 0.76 60.0 6.26e-01 92.0% 100.0%
3838316 3567.1.1.150 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › H-kinase_dim 0.76 61.0 5.30e-01 88.0% 61.3%
3236471 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.74 63.0 3.97e-01 100.0% 17.9%
3990688 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.74 60.0 5.06e-01 100.0% 53.7%
3597348 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.73 63.0 3.90e-01 100.0% 17.0%
3939044 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.72 62.0 3.87e-01 100.0% 18.9%
3628497 4082.1.1.0 ↗ alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain 0.72 59.0 5.91e-01 92.0% 92.0%
3605504 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.71 61.0 3.94e-01 96.0% 24.5%
3620383 2003.1.2.6 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FMO-like,NAD_binding_8 0.70 57.0 3.38e-01 92.0% 12.9%
4027991 4984.1.1.0 ↗ alpha bundles › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain › Duffy-binding-like domain, C-terminal subdomain 0.69 60.0 4.90e-01 98.0% 51.6%
5063166 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.69 58.0 4.56e-01 94.0% 46.7%
3884327 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.69 57.0 4.65e-01 94.0% 50.0%
3231463 632.8.1.2 ↗ 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 › Alpha-2-MRAP_C 0.69 61.0 4.94e-01 100.0% 92.6%
3174647 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.68 56.0 5.03e-01 92.0% 92.9%
3820045 603.1.1.118 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7610 0.68 58.0 4.81e-01 94.0% 57.6%
4038742 150.5.1.53 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PPE 0.67 55.0 4.49e-01 94.0% 48.4%
3253483 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.67 55.0 4.95e-01 92.0% 92.9%
4025324 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.66 53.0 4.92e-01 98.0% 71.4%
3613914 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 0.66 58.0 5.05e-01 100.0% 65.3%
4964878 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 0.65 57.0 5.08e-01 100.0% 70.0%
3906467 1008.1.1.106 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › CSN5_C 0.64 57.0 4.72e-01 100.0% 57.8%
2720300 192.22.1.1 ↗ alpha bundles › Long alpha-hairpin › Ral binding domain of RLIP76 › Ral binding domain of RLIP76 › RLIP76_Ral-bd 0.64 52.0 5.24e-01 90.0% 92.2%
2081586 616.1.1.1 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › Ribosomal_S15 0.62 52.0 4.91e-01 94.0% 79.0%
4158818 109.4.1.1677 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_Syf1_M, HAT_Syf1_CNRKL1_N 0.62 54.0 3.19e-01 100.0% 12.8%
3461932 3922.1.1.189 ↗ 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 › DUF630 0.56 46.0 3.91e-01 100.0% 53.7%
D2 medium residues 1-71
PDB