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SR-VP_0-2_scaffold_141_5191495_prodigal-single.1__X__X__00098

Bact-Vir

SR-VP_0-2_scaffold_141_5191495_prodigal-single.1__X__X__00098

Identity

Kingdom:
phage

Quality

75.8 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 1-64
PDB
Domain cluster: representative
CATH (58)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.88 62.0 6.77e-01 79.7% 90.4%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.86 67.0 5.93e-01 92.2% 59.8%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.86 65.0 6.79e-01 95.3% 86.4%
6yz2A01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.85 76.0 6.00e-01 100.0% 50.8%
2qvaA02 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 0.84 63.0 6.76e-01 85.9% 96.2%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.84 66.0 6.21e-01 84.4% 80.3%
1sr2A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.84 58.0 4.64e-01 79.7% 39.7%
3nkzA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.83 68.0 5.87e-01 96.9% 58.8%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.83 61.0 4.85e-01 84.4% 40.3%
4asvA00 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 0.82 55.0 5.13e-01 81.2% 57.0%
2lf0A01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.81 68.0 7.06e-01 96.9% 96.7%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.81 73.0 6.97e-01 100.0% 95.9%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.81 72.0 6.80e-01 98.4% 92.2%
2fcwA00 1.20.81.10 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › RAP domain 0.80 71.0 5.97e-01 100.0% 93.4%
3a8pA02 6.10.140.680 Special › Helix non-globular › Helix Hairpins › 0.79 71.0 5.84e-01 100.0% 63.2%
1yzmA00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.79 54.0 5.98e-01 73.4% 100.0%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.78 60.0 6.15e-01 85.9% 87.1%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 67.0 6.55e-01 96.9% 90.1%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.78 66.0 6.53e-01 95.3% 92.5%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.77 58.0 5.30e-01 81.2% 62.2%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.77 66.0 6.40e-01 98.4% 93.0%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.76 55.0 5.95e-01 78.1% 96.1%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.76 63.0 5.65e-01 93.8% 70.3%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.76 65.0 5.27e-01 100.0% 50.0%
1vcsA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.76 62.0 5.36e-01 98.4% 57.8%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.76 64.0 4.82e-01 100.0% 38.6%
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.75 53.0 5.77e-01 78.1% 100.0%
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 62.0 5.24e-01 100.0% 54.6%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.74 63.0 6.08e-01 92.2% 85.9%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 62.0 5.45e-01 98.4% 65.7%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.74 62.0 5.76e-01 96.9% 78.0%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.73 63.0 5.47e-01 100.0% 80.4%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 64.0 5.31e-01 96.9% 78.8%
3pjaJ01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.73 57.0 4.57e-01 100.0% 42.0%
1rv2D04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.73 62.0 6.02e-01 93.8% 98.6%
2g38B00 1.20.1260.20 Mainly Alpha › Up-down Bundle › Ferritin › PPE superfamily 0.73 64.0 4.72e-01 100.0% 37.6%
2r9iA00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.73 62.0 6.06e-01 98.4% 91.5%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.73 63.0 6.07e-01 98.4% 90.3%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.72 59.0 5.71e-01 95.3% 80.0%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.72 57.0 4.40e-01 89.1% 38.4%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 63.0 6.21e-01 100.0% 98.5%
6jpaE00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.71 62.0 4.62e-01 100.0% 42.0%
2l35A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.71 57.0 5.82e-01 93.8% 93.7%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.71 60.0 3.85e-01 100.0% 19.9%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.71 56.0 5.81e-01 93.8% 100.0%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 61.0 5.21e-01 100.0% 60.0%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.70 60.0 5.63e-01 100.0% 98.8%
4q5qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.69 55.0 4.79e-01 92.2% 58.1%
2xzmO02 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.69 54.0 5.26e-01 93.8% 80.0%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.68 59.0 5.41e-01 98.4% 75.3%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.68 56.0 4.99e-01 98.4% 65.7%
3l0iA01 1.20.120.1520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.67 59.0 4.31e-01 100.0% 37.5%
3p42A02 6.10.250.2280 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.66 53.0 5.15e-01 85.9% 100.0%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.65 54.0 5.22e-01 96.9% 81.1%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.65 54.0 4.79e-01 100.0% 63.5%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.64 44.0 4.43e-01 75.0% 71.9%
5lnkA00 1.20.58.1610 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NADH:ubiquinone/plastoquinone oxidoreductase, chain 3 0.63 52.0 4.44e-01 100.0% 54.8%
4f91B04 1.10.3380.10 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain 0.61 50.0 3.97e-01 93.8% 86.6%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3596490 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.84 68.0 6.09e-01 89.1% 63.3%
3852832 3922.1.1.72 ↗ 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 › FAM186A-B_C 0.83 75.0 5.59e-01 98.4% 72.7%
5007978 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 0.83 72.0 5.57e-01 95.3% 65.2%
3174647 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.83 72.0 7.05e-01 95.3% 95.7%
3560590 3755.3.1.142 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › FAM186A-B_C 0.82 73.0 5.49e-01 98.4% 72.7%
4936792 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.81 69.0 4.88e-01 98.4% 31.9%
2750143 3758.1.1.1 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › Bacillus_HBL 0.81 72.0 5.16e-01 100.0% 57.7%
2841849 3710.1.1.0 ↗ alpha bundles › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain › Golgi to ER traffic protein 1 cytosolic domain 0.80 61.0 6.25e-01 81.2% 90.2%
3963355 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 0.80 72.0 6.85e-01 100.0% 86.7%
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 0.80 63.0 5.36e-01 87.5% 54.0%
4862474 3291.1.1.4 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › PspA_IM30 0.79 71.0 5.46e-01 100.0% 76.1%
3809898 6006.1.1.0 ↗ extended segments › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain 0.79 64.0 6.41e-01 89.1% 86.2%
3511230 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.79 61.0 5.37e-01 85.9% 56.8%
3484742 3922.1.1.197 ↗ 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 › BBS2_hp 0.78 69.0 6.25e-01 100.0% 74.1%
3666875 1025.1.1.4 ↗ alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › DUF641 0.77 62.0 5.90e-01 90.6% 74.7%
3240117 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.77 69.0 6.15e-01 100.0% 73.3%
4162727 5086.1.1.12 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Uds1 0.76 66.0 5.14e-01 100.0% 53.1%
4867087 192.3.1.1 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Sod_Fe_N 0.75 62.0 5.74e-01 100.0% 72.3%
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 0.74 64.0 6.13e-01 100.0% 82.7%
3840552 5086.1.1.90 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › V_ATPase_I 0.74 64.0 4.80e-01 100.0% 44.8%
3766955 192.7.1.17 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › FAM186A-B_C 0.74 65.0 4.93e-01 96.9% 51.7%
4489484 2002.1.1.30 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.74 61.0 3.70e-01 95.3% 13.7%
4029165 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.73 65.0 3.93e-01 100.0% 36.0%
4978586 604.9.1.0 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 0.73 54.0 4.59e-01 82.8% 47.3%
3469701 3755.1.1.0 ↗ alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.72 62.0 4.31e-01 100.0% 33.8%
3473413 3826.1.1.0 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.72 61.0 5.66e-01 100.0% 77.6%
3586746 603.1.1.133 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7799 0.72 61.0 5.10e-01 100.0% 55.8%
4514051 192.7.1.2 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.71 61.0 5.13e-01 100.0% 57.4%
4961508 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 0.71 61.0 5.86e-01 100.0% 85.3%
3448294 3826.1.1.33 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › eIF-4B 0.70 56.0 5.19e-01 90.6% 69.4%
3186698 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.69 59.0 5.54e-01 100.0% 82.5%
3797638 3456.1.1.0 ↗ extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A 0.69 57.0 4.81e-01 100.0% 53.9%
4988301 3877.1.1.0 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.67 58.0 4.51e-01 100.0% 72.7%
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 0.66 56.0 4.50e-01 100.0% 48.9%
3614494 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.63 55.0 3.60e-01 93.8% 24.2%