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SR-VP_4-6_scaffold_141_4176636_prodigal-single.1__X__X__00057

Bact-Vir

SR-VP_4-6_scaffold_141_4176636_prodigal-single.1__X__X__00057

Identity

Kingdom:
phage

Quality

86.0 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 medium residues 7-81
PDB
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.88 60.0 6.82e-01 70.7% 91.4%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.86 58.0 5.90e-01 70.7% 70.3%
3mq1A01 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 60.0 5.57e-01 74.7% 58.7%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.86 60.0 4.55e-01 73.3% 34.6%
1vp7A00 1.10.287.1040 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Exonuclease VII, small subunit 0.85 60.0 6.33e-01 76.0% 80.9%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.84 56.0 5.12e-01 70.7% 53.6%
2ch7A00 1.10.287.950 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Methyl-accepting chemotaxis protein 0.84 58.0 3.73e-01 72.0% 18.8%
3uumA00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 58.0 4.81e-01 72.0% 44.3%
3u0cA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.82 59.0 4.58e-01 74.7% 37.7%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.82 60.0 4.09e-01 77.3% 24.1%
1sg2A00 3.30.910.20 Alpha Beta › 2-Layer Sandwich › Protein Binding, DinI Protein; Chain A › Skp domain 0.81 59.0 4.71e-01 78.7% 40.4%
3rx6A00 1.20.58.1090 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer 0.81 59.0 4.28e-01 76.0% 76.5%
1wpaA01 6.10.140.340 Special › Helix non-globular › Helix Hairpins › 0.80 58.0 5.19e-01 74.7% 56.6%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.80 58.0 6.39e-01 84.0% 93.4%
1t7sA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.80 56.0 4.64e-01 76.0% 42.6%
6xkyA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.79 63.0 4.60e-01 84.0% 41.7%
1wdzA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.79 54.0 3.74e-01 70.7% 24.7%
5z7qA00 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.77 61.0 4.54e-01 84.0% 48.3%
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 0.77 53.0 3.77e-01 72.0% 45.7%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.76 58.0 4.89e-01 80.0% 55.6%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.76 56.0 4.43e-01 78.7% 77.3%
4nx9A01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.75 59.0 4.60e-01 84.0% 52.3%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.75 51.0 4.80e-01 74.7% 58.9%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 53.0 4.69e-01 76.0% 59.3%
3a7kB00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.72 62.0 4.22e-01 93.3% 45.3%
4w4kA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.71 46.0 4.52e-01 72.0% 61.0%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.71 52.0 3.62e-01 77.3% 25.0%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.71 51.0 4.88e-01 77.3% 66.3%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.70 53.0 4.56e-01 80.0% 71.8%
5nl6A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 50.0 4.41e-01 78.7% 51.9%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 49.0 4.46e-01 80.0% 82.4%
3msyA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.65 44.0 3.90e-01 70.7% 95.5%
1ya0A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.65 57.0 4.17e-01 98.7% 72.3%
4a64A01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.65 50.0 4.25e-01 86.7% 73.5%
6vq6G02 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 0.64 44.0 3.25e-01 70.7% 31.5%
4ke2A00 6.10.140.1860 Special › Helix non-globular › Helix Hairpins › 0.61 46.0 3.38e-01 78.7% 30.1%
8d8lN01 1.10.287.1480 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 48.0 4.67e-01 93.3% 81.4%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4114398 3755.3.1.32 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Dynamitin 0.93 63.0 4.25e-01 72.0% 22.6%
4300897 5094.1.1.1 ↗ a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › OmpH 0.92 63.0 5.09e-01 70.7% 41.5%
4146694 192.29.1.277 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Dynamitin 0.91 63.0 6.84e-01 72.0% 83.1%
5070319 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.88 63.0 4.93e-01 76.0% 38.6%
4994917 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.87 60.0 4.02e-01 74.7% 21.6%
3737668 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.87 65.0 5.48e-01 78.7% 50.4%
3962991 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.87 64.0 4.52e-01 77.3% 29.2%
3408277 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.86 63.0 5.36e-01 77.3% 49.6%
3967403 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.86 63.0 6.79e-01 77.3% 87.7%
5071097 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.86 60.0 3.88e-01 72.0% 38.6%
3885709 192.13.1.0 ↗ alpha bundles › Long alpha-hairpin › ISY1 N-terminal domain-like › ISY1 N-terminal domain-like 0.86 66.0 6.66e-01 89.3% 80.0%
3708446 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.86 64.0 6.12e-01 77.3% 68.2%
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 0.85 62.0 4.23e-01 77.3% 24.9%
3783731 2004.1.1.505 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11, AAA_30 0.85 63.0 3.78e-01 78.7% 13.6%
3631949 309.1.2.5 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › ThrRS/AlaRS editing domain › Seryl_tRNA_N 0.85 62.0 5.13e-01 78.7% 45.6%
5020701 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.85 60.0 4.09e-01 73.3% 26.4%
4249161 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 0.85 62.0 6.70e-01 78.7% 87.7%
4957532 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.85 62.0 5.03e-01 76.0% 52.3%
4166693 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.85 63.0 4.54e-01 77.3% 65.4%
3168103 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.84 62.0 5.64e-01 77.3% 60.0%
3742731 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.84 63.0 4.80e-01 77.3% 73.5%
3594586 192.7.1.0 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.84 62.0 5.64e-01 77.3% 60.0%
5070360 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.84 62.0 4.75e-01 77.3% 83.2%
3620978 2003.1.2.18 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.84 62.0 3.95e-01 77.3% 18.1%
5084060 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.83 61.0 4.68e-01 77.3% 36.8%
3215465 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 0.83 61.0 4.94e-01 77.3% 43.8%
3964578 5094.1.1.1 ↗ a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › OmpH 0.83 62.0 4.89e-01 78.7% 41.4%
3240469 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.83 56.0 5.41e-01 73.3% 62.4%
3880178 192.8.1.92 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › CUPID 0.82 60.0 5.86e-01 76.0% 75.0%
4982777 3291.1.1.238 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF7121 0.82 60.0 4.12e-01 77.3% 24.8%
4453179 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.82 63.0 4.49e-01 80.0% 83.6%
4259224 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.82 61.0 4.66e-01 77.3% 37.4%
3731259 5042.1.1.1 ↗ extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA 0.82 57.0 4.14e-01 72.0% 30.2%
5005724 3755.3.1.637 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF7121 0.82 62.0 4.21e-01 78.7% 28.5%
3381605 109.4.1.146 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cohesin_load 0.82 66.0 3.76e-01 85.3% 11.7%
5081955 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.81 61.0 4.05e-01 78.7% 53.7%
4324117 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.81 61.0 3.77e-01 77.3% 17.4%
3920125 3755.3.1.450 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Uso1_p115_C 0.81 61.0 4.39e-01 78.7% 51.3%
3404132 3755.2.1.0 ↗ alpha bundles › YscO-like › Flagellar FliJ protein › Flagellar FliJ protein 0.81 59.0 4.26e-01 77.3% 29.2%
3629641 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 75.0 5.10e-01 100.0% 89.8%
4387547 7013.1.1.1 ↗ alpha bundles › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Ribosome assembly factor Efg1-like › Efg1 0.81 63.0 4.54e-01 81.3% 84.7%
3235839 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.81 59.0 4.37e-01 76.0% 65.7%
3178900 192.2.1.30 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Uds1 0.80 60.0 4.75e-01 78.7% 53.8%
5070059 3834.1.1.25 ↗ alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain › DUF7121 0.80 73.0 4.99e-01 100.0% 30.4%
3980912 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.80 57.0 4.83e-01 73.3% 49.6%
4998688 192.2.1.89 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › DUF7121 0.80 60.0 4.06e-01 78.7% 84.1%
3766956 622.4.1.22 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › FAM186A-B_N 0.80 54.0 4.60e-01 70.7% 45.0%
3990182 3922.1.1.226 ↗ 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 › Fy-3 0.78 56.0 4.82e-01 74.7% 50.4%
3585791 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.77 53.0 5.39e-01 74.7% 72.0%
3577907 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.76 55.0 3.71e-01 77.3% 22.4%
4175809 5086.1.1.88 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_CyaD 0.75 50.0 3.82e-01 78.7% 30.9%
3966605 601.4.1.84 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › KinB_sensor 0.75 50.0 4.18e-01 76.0% 42.5%
4589656 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.74 55.0 4.35e-01 77.3% 40.0%
3356095 601.37.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Photosystem II lipoprotein Psb27 › Photosystem II lipoprotein Psb27 › PSII_Pbs27 0.72 50.0 4.32e-01 76.0% 45.8%
3493924 4177.1.1.1 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.70 53.0 3.62e-01 82.7% 38.5%
3608012 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 0.69 50.0 4.82e-01 78.7% 68.2%
3622492 109.4.1.1344 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF28737 0.66 57.0 3.67e-01 100.0% 30.5%