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NC_016165.1__YP_004934687.1__RcapMu44__00044

Bact-Vir

NC_016165.1__YP_004934687.1__RcapMu44__00044

Identity

Accession:
NC_016165 ↗
Kingdom:
phage

Quality

91.5 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 13-92
PDB
Domain cluster: representative
CATH (57)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.87 63.0 5.61e-01 75.0% 56.9%
1pd3A00 1.10.287.230 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.83 54.0 6.48e-01 71.2% 100.0%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.82 59.0 6.32e-01 73.8% 89.7%
6lumD01 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 56.0 4.70e-01 73.8% 44.8%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.81 53.0 5.81e-01 70.0% 81.5%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.81 58.0 6.03e-01 75.0% 85.1%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.79 55.0 4.96e-01 72.5% 54.1%
2o5iN07 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.78 58.0 5.10e-01 78.8% 70.7%
2uv8A07 6.10.140.1410 Special › Helix non-globular › Helix Hairpins › 0.77 55.0 5.38e-01 73.8% 75.3%
2gd5A00 6.10.140.1230 Special › Helix non-globular › Helix Hairpins › 0.77 53.0 4.34e-01 73.8% 40.1%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.77 57.0 5.61e-01 77.5% 89.4%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.77 55.0 5.89e-01 75.0% 92.6%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 54.0 4.83e-01 72.5% 56.5%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.77 54.0 5.54e-01 73.8% 90.9%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.76 53.0 5.77e-01 72.5% 98.4%
4i0xG00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.76 52.0 5.55e-01 71.2% 85.3%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.76 52.0 5.27e-01 71.2% 92.3%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.75 51.0 5.01e-01 73.8% 66.7%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.75 52.0 5.27e-01 72.5% 92.4%
2vkzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.74 55.0 3.81e-01 78.8% 82.8%
1wp7A00 1.10.287.770 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YojJ-like 0.73 50.0 5.48e-01 71.2% 89.1%
2d9dA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.73 49.0 4.73e-01 77.5% 61.8%
3fd9A03 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.72 51.0 5.32e-01 73.8% 83.6%
3g80A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.72 50.0 5.21e-01 72.5% 80.8%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.72 54.0 5.80e-01 80.0% 100.0%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.71 52.0 5.34e-01 76.2% 88.2%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.70 49.0 4.58e-01 72.5% 76.8%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.70 50.0 4.02e-01 75.0% 39.6%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 49.0 5.40e-01 72.5% 90.6%
2kwhA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 46.0 5.19e-01 70.0% 96.4%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.70 48.0 4.95e-01 72.5% 93.5%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.70 50.0 4.96e-01 76.2% 86.0%
1ykeD00 6.10.280.10 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator complex, subunit Med21 0.69 48.0 4.33e-01 72.5% 53.1%
2kg7B00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.69 55.0 5.16e-01 86.3% 85.6%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.68 51.0 4.54e-01 78.8% 69.4%
4iw9A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.68 49.0 4.41e-01 76.2% 60.2%
4wqoD00 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.68 47.0 3.95e-01 72.5% 46.8%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 48.0 5.02e-01 76.2% 91.5%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.66 45.0 4.13e-01 71.2% 55.0%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.66 48.0 4.88e-01 78.8% 84.6%
5u56A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.64 45.0 4.12e-01 75.0% 57.1%
4kn7D01 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.64 53.0 4.47e-01 90.0% 100.0%
1jalA03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.64 45.0 4.52e-01 73.8% 72.8%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 46.0 4.81e-01 76.2% 91.8%
1yg2A02 6.10.140.190 Special › Helix non-globular › Helix Hairpins › 0.63 45.0 4.38e-01 75.0% 80.0%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 45.0 4.82e-01 75.0% 87.0%
6ldkA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.62 43.0 3.44e-01 73.8% 37.8%
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 42.0 3.73e-01 73.8% 48.3%
3nkuA00 1.10.357.170 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.61 53.0 4.17e-01 98.8% 79.0%
1hwyA01 1.10.287.140 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 37.0 4.43e-01 71.2% 98.0%
4hojA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 43.0 3.96e-01 75.0% 61.2%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 42.0 3.85e-01 72.5% 57.9%
4finB01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 42.0 2.93e-01 75.0% 48.2%
2gsqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.59 40.0 3.72e-01 71.2% 54.6%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 40.0 4.40e-01 73.8% 100.0%
1n2aA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.58 41.0 3.79e-01 73.8% 83.0%
1b06A01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.58 42.0 4.57e-01 76.2% 92.5%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3913850 601.19.1.5 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein › PBC (DEPRECATED) 0.86 60.0 5.07e-01 72.5% 68.0%
3720672 109.4.1.1591 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › U-box 0.83 58.0 3.89e-01 72.5% 21.1%
3198228 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.83 60.0 4.32e-01 75.0% 30.2%
3691750 376.1.1.8 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.83 57.0 4.57e-01 71.2% 38.3%
5018636 605.1.1.3 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_2 0.82 57.0 6.12e-01 72.5% 82.9%
5076400 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 0.81 58.0 5.47e-01 75.0% 68.4%
3282651 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 0.79 56.0 3.36e-01 73.8% 11.7%
5017842 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 0.79 58.0 5.67e-01 76.2% 83.5%
3264839 109.4.1.220 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SMG1 0.78 54.0 3.20e-01 72.5% 10.4%
3470858 5041.1.1.1 extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.78 55.0 5.18e-01 73.8% 67.4%
3991599 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.77 55.0 5.07e-01 73.8% 73.0%
3575178 616.1.1.30 alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › Neur_chan_memb 0.76 52.0 5.37e-01 70.0% 76.0%
3942242 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 0.76 54.0 4.42e-01 73.8% 60.7%
3629808 3291.1.1.130 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › CHDCT2 0.76 53.0 5.11e-01 72.5% 67.8%
3767940 192.15.1.43 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › PH_19 0.75 53.0 5.33e-01 73.8% 76.2%
4940281 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.75 50.0 5.47e-01 71.2% 84.6%
4005270 3718.1.1.15 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › COX4_pro 0.74 50.0 4.77e-01 70.0% 62.1%
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 0.74 53.0 4.13e-01 75.0% 35.9%
4619538 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.74 53.0 4.64e-01 73.8% 54.8%
4189586 192.29.1.264 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › COX4_pro 0.73 54.0 5.12e-01 77.5% 77.9%
4101335 2006.1.4.8 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_5 0.73 54.0 3.81e-01 76.2% 27.6%
4819006 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 0.73 51.0 3.52e-01 73.8% 22.7%
4998576 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.72 52.0 5.41e-01 76.2% 93.3%
4604091 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.72 51.0 4.71e-01 73.8% 63.0%
3476331 603.2.1.0 alpha bundles › STAT-like › STAT › STAT 0.72 50.0 4.29e-01 72.5% 56.8%
3930829 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.71 50.0 5.14e-01 72.5% 78.7%
5057549 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.71 50.0 4.43e-01 73.8% 50.8%
4116112 192.8.1.353 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › Med10 0.71 49.0 4.95e-01 72.5% 73.8%
3390353 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.70 49.0 5.37e-01 73.8% 95.4%
3822870 605.1.1.169 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › TMEM120A-B 0.70 49.0 4.53e-01 73.8% 79.0%
3595968 605.2.1.0 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 0.70 49.0 4.90e-01 72.5% 78.8%
5045370 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 0.70 49.0 5.55e-01 77.5% 98.3%
3732397 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 0.70 50.0 4.35e-01 75.0% 87.5%
3417475 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.70 49.0 3.09e-01 73.8% 16.9%
4174713 192.1.1.2 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › GreA_GreB_N 0.69 49.0 4.96e-01 75.0% 81.2%
3352873 109.3.1.0 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.69 47.0 3.10e-01 72.5% 15.9%
3780651 3602.1.1.0 alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.67 46.0 5.06e-01 72.5% 92.3%
4054285 5.1.4.139 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.66 58.0 3.57e-01 98.8% 49.2%
3698336 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.65 46.0 4.54e-01 73.8% 70.6%
3503989 162.1.1.1 alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PRD 0.62 43.0 4.07e-01 71.2% 97.9%
3514607 3226.1.1.3 alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › HCO3_cotransp 0.60 51.0 3.54e-01 98.8% 49.0%
3643105 6026.1.1.1 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › cwf21 0.58 43.0 3.44e-01 78.8% 61.3%