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NC_052983.1__YP_009998126.1__JT325_gp22__00022

Bact-Vir

NC_052983.1__YP_009998126.1__JT325_gp22__00022

Identity

Accession:
NC_052983 ↗
Kingdom:
phage

Quality

83.3 mean pLDDT

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 8-70
PDB
Domain cluster: representative
CATH (59)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3sjrA00 1.10.132.90 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.87 69.0 5.41e-01 85.7% 44.4%
4dokA01 3.50.70.10 Alpha Beta › 3-Layer(bba) Sandwich › Chalcone isomerase › 0.82 59.0 4.31e-01 76.2% 30.3%
1kf6D00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.82 65.0 5.24e-01 85.7% 47.1%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.82 69.0 5.52e-01 90.5% 56.4%
1x0tA01 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 0.80 59.0 6.06e-01 77.8% 85.2%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.79 68.0 6.65e-01 95.2% 92.6%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.76 58.0 5.80e-01 85.7% 80.0%
2p5tA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.75 59.0 5.20e-01 85.7% 63.0%
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.75 49.0 4.93e-01 71.4% 67.7%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.75 63.0 6.06e-01 95.2% 83.8%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.74 61.0 5.83e-01 92.1% 81.1%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.73 63.0 5.90e-01 95.2% 84.4%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.73 59.0 5.12e-01 90.5% 57.7%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.73 51.0 4.42e-01 77.8% 47.9%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.73 63.0 6.35e-01 96.8% 95.3%
2ptfB02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.73 47.0 4.99e-01 76.2% 73.7%
2om6A02 1.10.150.400 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.73 51.0 4.72e-01 73.0% 62.0%
3zdmB00 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 0.73 50.0 5.46e-01 90.5% 90.0%
6oi7A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.72 57.0 3.99e-01 85.7% 35.7%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.72 61.0 5.63e-01 100.0% 74.1%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.71 62.0 5.36e-01 100.0% 71.6%
3ns4A00 1.10.357.110 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Vacuolar protein sorting-associated protein 53, C-terminus 0.71 59.0 4.11e-01 92.1% 29.3%
8a1gC01 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 61.0 4.35e-01 95.2% 34.8%
2zy9A03 1.10.357.20 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › SLC41 divalent cation transporters, integral membrane domain 0.71 57.0 4.15e-01 88.9% 74.1%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.70 56.0 5.14e-01 96.8% 67.1%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.69 60.0 3.77e-01 95.2% 19.1%
3fd9A03 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 60.0 5.75e-01 100.0% 84.9%
1j30A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.69 59.0 4.65e-01 100.0% 48.2%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.69 57.0 4.77e-01 95.2% 52.7%
2l6xA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.69 60.0 4.01e-01 96.8% 28.1%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.69 60.0 5.10e-01 100.0% 61.3%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.68 59.0 5.11e-01 100.0% 62.7%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.68 55.0 5.52e-01 95.2% 92.1%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.68 56.0 5.38e-01 92.1% 81.1%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 60.0 4.79e-01 100.0% 66.4%
2g2dA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.68 59.0 4.39e-01 100.0% 38.7%
6qumQ00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 54.0 5.15e-01 90.5% 77.0%
4mt4A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.67 58.0 3.49e-01 98.4% 38.6%
3rq9A00 1.10.287.2500 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 58.0 5.48e-01 100.0% 83.3%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.66 49.0 4.66e-01 81.0% 65.4%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.66 57.0 4.73e-01 100.0% 59.1%
1vw4T01 6.10.330.20 Special › Helix non-globular › Monooxygenase › 0.65 54.0 4.52e-01 95.2% 52.7%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 54.0 4.78e-01 100.0% 70.9%
1kfdA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.65 56.0 5.38e-01 95.2% 88.7%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 54.0 4.86e-01 98.4% 72.0%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.65 49.0 4.49e-01 90.5% 60.7%
5azsC01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.64 54.0 3.43e-01 96.8% 93.0%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.63 54.0 4.38e-01 95.2% 82.3%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 54.0 5.20e-01 100.0% 82.2%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 51.0 4.59e-01 100.0% 87.3%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.63 52.0 4.44e-01 96.8% 60.6%
1gnlA01 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.61 47.0 3.75e-01 87.3% 39.6%
1jogA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.61 53.0 4.19e-01 100.0% 98.5%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.61 53.0 5.03e-01 100.0% 98.7%
4ofzA01 1.20.58.1800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 51.0 4.25e-01 95.2% 54.9%
4hz4A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 52.0 4.36e-01 100.0% 58.0%
1b06A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.59 53.0 5.21e-01 100.0% 95.5%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 43.0 4.13e-01 87.3% 70.3%
1m4rB00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 43.0 3.39e-01 98.4% 39.7%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4028927 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.86 78.0 6.37e-01 95.2% 96.2%
3188140 601.1.2.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.84 70.0 5.06e-01 90.5% 35.8%
5047182 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 0.82 65.0 6.50e-01 85.7% 83.1%
3721541 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 0.79 63.0 5.34e-01 85.7% 56.0%
3961296 150.5.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.79 65.0 5.66e-01 90.5% 62.8%
4005270 3718.1.1.15 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › COX4_pro 0.77 62.0 5.41e-01 90.5% 57.9%
4981035 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 0.77 64.0 6.41e-01 90.5% 90.8%
3966348 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 0.77 64.0 5.77e-01 90.5% 69.4%
3976071 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.77 63.0 5.58e-01 90.5% 66.7%
4107135 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 0.76 63.0 5.39e-01 90.5% 60.0%
3246566 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.76 64.0 4.58e-01 95.2% 32.6%
3504889 604.22.1.1 alpha bundles › Spectrin repeat-like › tubulin binding cofactor C N-terminal domain › tubulin binding cofactor C N-terminal domain › TBCC_N 0.75 65.0 5.92e-01 98.4% 74.1%
3253210 633.6.1.2 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX 0.74 66.0 4.66e-01 100.0% 33.8%
3465588 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.74 67.0 5.59e-01 100.0% 81.0%
4287749 150.5.1.110 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › PRESAN 0.74 60.0 5.34e-01 90.5% 65.6%
5039558 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.73 63.0 4.94e-01 98.4% 62.2%
3827397 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.72 55.0 4.50e-01 81.0% 48.7%
3504303 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.72 64.0 5.52e-01 100.0% 78.0%
3387443 603.5.1.1 alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN 0.72 64.0 5.27e-01 100.0% 55.7%
3913790 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.72 62.0 5.18e-01 100.0% 95.7%
3258047 5041.1.1.0 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.71 53.0 4.07e-01 84.1% 34.7%
3593157 1076.1.1.0 alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related 0.70 62.0 3.95e-01 98.4% 31.0%
3704122 1008.1.1.0 alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain 0.70 51.0 3.99e-01 81.0% 38.4%
4406905 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 0.70 57.0 5.61e-01 95.2% 84.3%
4085389 4207.1.2.29 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › Med4 0.70 61.0 4.67e-01 100.0% 42.8%
3735607 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.70 57.0 5.37e-01 95.2% 77.5%
4405928 5086.1.1.196 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YknX 0.69 61.0 5.94e-01 100.0% 100.0%
4081214 605.1.1.290 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Phage_Nu1 0.69 55.0 5.40e-01 90.5% 81.4%
4619538 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.67 57.0 4.76e-01 100.0% 66.1%
5040454 3922.1.1.137 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 › HisKA 0.66 53.0 5.32e-01 96.8% 90.8%
4541657 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 0.65 53.0 4.94e-01 90.5% 77.5%
3873779 2004.1.1.463 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin, Kinesin_assoc, Microtub_bd 0.65 52.0 3.18e-01 87.3% 43.9%
3428029 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 0.65 56.0 4.87e-01 98.4% 65.0%
4116939 2004.1.1.525 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23, AAA_27, SbcC_Walker_B 0.65 55.0 3.30e-01 100.0% 12.7%
3573745 609.1.1.0 alpha bundles › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase 0.65 56.0 4.15e-01 100.0% 50.6%
3946910 3755.1.1.0 alpha bundles › YscO-like › Putative type III secretion protein YscO-related › Putative type III secretion protein YscO-related 0.64 55.0 4.02e-01 100.0% 70.3%
4447644 2004.1.1.514 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23, AAA_29, SbcC_Walker_B 0.61 54.0 3.32e-01 100.0% 26.8%
3705837 192.12.1.5 alpha bundles › Long alpha-hairpin › Transcriptional repressor TraM › Transcriptional repressor TraM › Cmc1 0.60 49.0 4.52e-01 93.7% 78.8%