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SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00128

Bact-Vir

SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00128

Identity

Kingdom:
phage

Quality

84.9 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 1-96
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5ha6B00 1.10.287.210 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 40.0 4.43e-01 79.2% 69.6%
2i0mA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.69 43.0 4.19e-01 79.2% 56.6%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 49.0 5.39e-01 79.2% 91.0%
4modA00 1.20.5.300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.67 43.0 4.78e-01 79.2% 81.6%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 39.0 4.47e-01 79.2% 83.1%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.61 38.0 4.43e-01 72.9% 90.8%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.61 43.0 3.93e-01 100.0% 54.1%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.60 39.0 3.81e-01 89.6% 58.3%
1wn0A00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.60 44.0 4.02e-01 78.1% 76.3%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 43.0 4.21e-01 80.2% 67.6%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 44.0 3.58e-01 79.2% 93.6%
3terA00 1.10.287.3550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.59 44.0 4.15e-01 79.2% 67.2%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.59 43.0 4.12e-01 79.2% 64.9%
4d8mA01 1.20.190.10 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain 0.59 41.0 3.19e-01 79.2% 32.4%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.59 41.0 4.01e-01 79.2% 65.1%
2ieqA00 1.20.5.300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 43.0 4.53e-01 79.2% 84.1%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 43.0 3.80e-01 80.2% 53.2%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.58 37.0 4.23e-01 79.2% 89.6%
3g67A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.58 43.0 3.35e-01 79.2% 94.8%
2d1lA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.58 48.0 3.64e-01 93.8% 78.7%
2b5uA02 1.10.287.620 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix Hairpins 0.58 43.0 3.64e-01 79.2% 75.8%
1u7lA02 1.20.1460.10 Mainly Alpha › Up-down Bundle › subunit c (vma5p) of the yeast v-atpase, domain 2 › subunit c (vma5p) of the yeast v-atpase, domain 2 0.58 43.0 3.49e-01 79.2% 88.0%
1l8dA00 1.10.287.510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.57 43.0 4.21e-01 79.2% 85.4%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 41.0 4.46e-01 77.1% 94.9%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.57 40.0 4.31e-01 72.9% 86.3%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 43.0 3.18e-01 79.2% 33.5%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.56 47.0 3.41e-01 89.6% 80.9%
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 0.56 50.0 3.87e-01 97.9% 84.3%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 42.0 4.25e-01 79.2% 81.9%
3ofnY00 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.56 42.0 3.99e-01 79.2% 79.1%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.56 38.0 4.26e-01 76.0% 88.3%
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 0.56 49.0 3.90e-01 97.9% 84.5%
1y1uA01 1.20.1050.20 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › STAT transcription factor, all-alpha domain 0.56 41.0 3.28e-01 78.1% 39.5%
3pwxA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.56 41.0 3.36e-01 79.2% 91.3%
3i2wA01 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 45.0 3.36e-01 90.6% 81.4%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.55 40.0 4.41e-01 78.1% 98.6%
3x1oA00 1.20.120.1790 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.55 39.0 3.42e-01 75.0% 77.2%
2oexA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.54 46.0 4.05e-01 93.8% 83.9%
1zkeA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 38.0 4.17e-01 75.0% 88.9%
4wpeA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.53 47.0 3.42e-01 97.9% 80.0%
2rgnB01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.53 46.0 3.72e-01 100.0% 91.2%
2hqmA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 41.0 3.11e-01 83.3% 42.1%
3dzaA01 1.20.120.1940 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YfdX protein domain 0.52 38.0 3.65e-01 86.5% 65.0%
5ziyA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.51 43.0 3.54e-01 96.9% 59.3%
8e9gK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 34.0 3.54e-01 78.1% 74.7%
4jioA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.50 43.0 3.71e-01 97.9% 83.9%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.50 34.0 3.70e-01 81.2% 82.9%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3614763 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 46.0 4.28e-01 79.2% 59.2%
3392569 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.64 48.0 4.39e-01 79.2% 60.8%
3785619 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.63 47.0 4.45e-01 79.2% 67.0%
3184698 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 0.62 42.0 4.32e-01 79.2% 73.3%
3309008 375.1.1.246 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rad50_zn_hook 0.62 45.0 4.37e-01 79.2% 69.5%
3538408 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.61 46.0 4.64e-01 79.2% 81.1%
3229643 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.61 45.0 4.18e-01 79.2% 61.7%
3611798 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 43.0 3.25e-01 78.1% 96.3%
4607020 192.2.1.3 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Rad50_zn_hook 0.59 43.0 3.86e-01 79.2% 54.8%
5062471 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.59 42.0 4.07e-01 76.0% 68.2%
4061410 3748.1.1.2 ↗ extended segments › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › CSN5_C 0.58 42.0 4.09e-01 79.2% 69.5%
3680007 3755.3.1.549 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PF28649 0.58 43.0 3.93e-01 79.2% 85.4%
3625044 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.58 43.0 4.21e-01 79.2% 76.2%
3623411 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 42.0 4.26e-01 79.2% 77.9%
4999971 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 42.0 4.39e-01 79.2% 85.6%
4652027 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 0.57 43.0 3.72e-01 79.2% 66.9%
287322 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.57 43.0 3.76e-01 79.2% 56.7%
3802871 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 43.0 4.20e-01 79.2% 91.4%
3485924 3291.1.1.152 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › CDK5RAP3 0.57 42.0 3.18e-01 77.1% 51.1%
3705699 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 0.57 42.0 3.37e-01 79.2% 41.1%
4005523 3860.1.1.167 ↗ alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm › MscS_porin 0.57 41.0 3.51e-01 77.1% 63.1%
5078448 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 42.0 4.04e-01 79.2% 70.0%
4015122 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 0.56 42.0 3.82e-01 79.2% 70.0%
5000789 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 41.0 4.06e-01 78.1% 72.4%
3977410 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 0.56 42.0 4.29e-01 79.2% 91.6%
3663497 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.56 41.0 3.56e-01 78.1% 53.5%
3600607 192.23.1.0 ↗ alpha bundles › Long alpha-hairpin › DUF683 › DUF683 0.56 42.0 3.96e-01 79.2% 66.1%
3358009 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.56 42.0 4.12e-01 79.2% 76.2%
3338093 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 0.56 42.0 4.16e-01 79.2% 79.0%
3676029 4958.1.1.1 ↗ a+b complex topology › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › second helical domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_5,RNA_pol_Rpb1_4 0.56 41.0 3.00e-01 78.1% 63.4%
3597345 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 0.56 42.0 3.97e-01 79.2% 84.3%
3590855 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 42.0 2.63e-01 79.2% 15.4%
3955729 150.8.1.7 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PF29644 0.55 47.0 3.92e-01 92.7% 98.2%
4957738 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 0.55 41.0 3.47e-01 79.2% 48.1%
3305747 192.2.1.18 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ING 0.55 41.0 3.65e-01 79.2% 70.0%
3517171 604.8.1.3 ↗ alpha bundles › Spectrin repeat-like › Smac/diablo › Smac/diablo › Gpi1 0.55 44.0 3.45e-01 87.5% 96.2%
4995728 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 0.55 41.0 2.96e-01 79.2% 35.6%
3543713 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.55 40.0 4.13e-01 79.2% 81.1%
5028125 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 0.55 40.0 3.84e-01 80.2% 66.4%
4982001 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 0.55 42.0 3.86e-01 81.2% 80.6%
3642639 3922.1.1.269 ↗ 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 › Rad50_zn_hook 0.55 41.0 4.02e-01 79.2% 77.1%
4276314 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.54 41.0 3.12e-01 79.2% 35.0%
4984959 3758.1.1.113 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › Rad50_zn_hook 0.54 40.0 2.82e-01 79.2% 23.0%
4933131 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.54 44.0 4.05e-01 87.5% 81.3%
5024245 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 0.54 40.0 3.85e-01 79.2% 92.7%
3871834 5086.1.1.99 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ApoL 0.53 39.0 4.18e-01 78.1% 96.2%
3460773 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.53 40.0 3.83e-01 79.2% 69.1%
3521098 174.1.1.1 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.53 46.0 3.98e-01 100.0% 60.6%
3717340 605.1.1.155 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Gpi1 0.53 47.0 3.73e-01 100.0% 97.0%
3896842 3755.3.1.44 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › JMY 0.53 39.0 2.99e-01 79.2% 40.0%
4663129 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 0.52 38.0 2.82e-01 78.1% 74.4%
3613695 3922.1.1.230 ↗ 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 › DRC10_N 0.52 38.0 3.27e-01 78.1% 49.4%
4978597 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.52 45.0 3.72e-01 100.0% 54.6%
3264172 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 0.52 38.0 3.85e-01 77.1% 93.7%
3274487 605.1.1.155 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Gpi1 0.52 44.0 3.67e-01 95.8% 94.3%
4353916 3755.3.1.284 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Utp11 0.52 39.0 3.52e-01 79.2% 58.5%
4022541 603.2.1.0 ↗ alpha bundles › STAT-like › STAT › STAT 0.51 46.0 3.37e-01 100.0% 68.1%
3287147 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.50 44.0 3.72e-01 100.0% 94.7%