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rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00249

Bact-Vir

rifoxyb1_full_scaffold_4_prodigal-single.1__X__X__00249

Identity

Kingdom:
phage

Quality

81.3 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 medium residues 27-87
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1t3lA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 38.0 2.74e-01 75.4% 92.6%
4cy8A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 39.0 2.72e-01 91.8% 71.9%
D2 medium residues 88-140
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fvpA00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.57 41.0 2.73e-01 77.4% 90.0%
1wr2A02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.53 41.0 3.53e-01 100.0% 55.1%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3739798 109.4.1.1158 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_IPO11 0.64 37.0 2.30e-01 100.0% 10.6%
D3 medium residues 141-239
PDB
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1in0A02 3.30.70.990 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YajQ-like, domain 2 0.72 30.0 3.12e-01 70.7% 41.3%
6xj1A01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.69 63.0 4.66e-01 99.0% 70.6%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 61.0 5.94e-01 94.9% 89.0%
1zkeA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 53.0 5.84e-01 86.9% 97.5%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.69 58.0 5.73e-01 89.9% 86.8%
2zdiC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.68 58.0 5.04e-01 90.9% 98.0%
3terA00 1.10.287.3550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.66 54.0 5.06e-01 86.9% 92.4%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.66 34.0 2.66e-01 92.9% 22.6%
1auwA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.64 52.0 3.98e-01 87.9% 40.8%
6rzqA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.64 29.0 3.12e-01 81.8% 47.1%
3aeiA00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 51.0 5.30e-01 85.9% 94.7%
2b5uA02 1.10.287.620 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix Hairpins 0.62 56.0 4.72e-01 98.0% 78.9%
1yf2A02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.61 51.0 4.99e-01 89.9% 84.1%
2oarB00 1.10.1200.120 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Large-conductance mechanosensitive channel, MscL; domain 1 0.61 41.0 3.76e-01 70.7% 54.4%
1fs0G02 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.61 46.0 4.77e-01 89.9% 88.8%
2hfiA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.59 48.0 4.40e-01 84.8% 99.2%
2zw3A00 1.20.1440.80 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Gap junction channel protein cysteine-rich domain 0.58 48.0 3.87e-01 91.9% 51.7%
1lkxC03 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.57 46.0 4.48e-01 85.9% 97.2%
5y06A01 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 49.0 3.78e-01 97.0% 71.6%
1t7pA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.57 46.0 3.93e-01 86.9% 95.5%
1neiA00 3.30.160.220 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG 0.55 28.0 3.52e-01 92.9% 81.7%
3bqkA02 1.20.1310.20 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Duffy-antigen binding domain 0.55 38.0 3.23e-01 70.7% 73.5%
3p9aF00 1.10.132.80 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.54 31.0 2.81e-01 93.9% 39.6%
2p92A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.53 36.0 3.72e-01 70.7% 72.6%
3gr5A02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.52 29.0 3.44e-01 82.8% 79.4%
4djbA00 3.30.70.2870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 0.52 36.0 3.38e-01 93.9% 59.3%
1ab8A00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.51 36.0 2.98e-01 81.8% 41.8%
ECOD (78)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3236563 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.80 59.0 5.39e-01 96.0% 60.0%
3270655 5001.1.1.5 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.80 56.0 4.04e-01 90.9% 27.2%
3802871 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.76 57.0 5.59e-01 88.9% 73.3%
3234976 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.73 67.0 6.43e-01 94.9% 89.1%
4681355 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.72 61.0 5.69e-01 89.9% 99.2%
3208120 633.23.1.22 alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.71 55.0 4.75e-01 83.8% 52.3%
3690513 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 64.0 5.75e-01 96.0% 85.7%
3586018 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 63.0 5.52e-01 93.9% 81.4%
3394225 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 64.0 6.08e-01 96.0% 87.0%
3485296 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.71 61.0 5.96e-01 89.9% 88.6%
60305 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.70 60.0 5.90e-01 90.9% 88.7%
3650111 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 0.70 58.0 3.88e-01 96.0% 23.8%
4410759 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.70 57.0 5.41e-01 85.9% 89.6%
3579472 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.69 56.0 5.12e-01 94.9% 65.4%
None 0.69 58.0 4.45e-01 88.9% 49.8%
1000517 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.69 56.0 5.64e-01 96.0% 84.2%
4453177 4207.1.2.1 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › Med7 0.69 52.0 4.78e-01 78.8% 61.6%
3675304 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.69 62.0 5.74e-01 94.9% 81.7%
3229643 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.69 61.0 5.70e-01 94.9% 83.3%
4666900 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.68 60.0 5.49e-01 92.9% 99.2%
4259368 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.68 59.0 5.51e-01 91.9% 80.0%
3482328 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.68 56.0 5.46e-01 84.8% 83.8%
4236657 633.21.1.18 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CASP_dom 0.68 50.0 4.26e-01 78.8% 49.0%
5060418 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.68 62.0 5.77e-01 98.0% 85.8%
3712081 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.67 57.0 5.54e-01 89.9% 84.5%
4977598 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.67 55.0 5.32e-01 96.0% 78.2%
3786162 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.67 53.0 5.49e-01 93.9% 87.4%
3228583 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.67 55.0 5.22e-01 96.0% 74.8%
3937187 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.67 54.0 5.20e-01 83.8% 79.1%
3170708 632.1.1.6 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Pho88 0.67 55.0 4.77e-01 86.9% 59.3%
3691694 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 57.0 5.26e-01 91.9% 88.0%
3202986 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 58.0 5.39e-01 94.9% 80.0%
3265214 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 58.0 5.52e-01 93.9% 83.5%
3828336 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 58.0 5.51e-01 93.9% 97.4%
3413217 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.66 56.0 5.34e-01 96.0% 78.3%
3740494 5001.1.1.6 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.66 51.0 3.85e-01 82.8% 85.4%
3921728 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.66 61.0 5.75e-01 99.0% 87.8%
3785619 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.66 59.0 5.64e-01 97.0% 88.7%
5035493 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.65 53.0 5.22e-01 96.0% 81.9%
4991135 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 0.65 52.0 5.12e-01 85.9% 80.0%
3637098 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.65 55.0 4.96e-01 90.9% 69.9%
4381440 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 57.0 5.40e-01 94.9% 84.3%
3716174 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.64 53.0 5.11e-01 92.9% 78.2%
4992299 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.64 54.0 4.02e-01 89.9% 41.2%
5000789 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 55.0 5.41e-01 90.9% 91.4%
3270487 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 58.0 5.59e-01 97.0% 90.0%
3935332 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.64 51.0 4.65e-01 96.0% 65.4%
139279 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.63 51.0 5.30e-01 85.9% 94.7%
4025349 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.63 52.0 4.69e-01 93.9% 66.2%
4112182 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.63 53.0 5.04e-01 91.9% 97.5%
4224821 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.63 57.0 5.38e-01 97.0% 87.0%
4271212 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.62 53.0 4.99e-01 96.0% 75.6%
4025452 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.62 57.0 5.38e-01 98.0% 87.0%
3787269 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.62 52.0 5.03e-01 94.9% 81.8%
3675873 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.62 55.0 4.48e-01 98.0% 62.7%
3220485 5001.1.1.0 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.62 56.0 3.82e-01 100.0% 87.8%
3927319 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.61 53.0 5.28e-01 92.9% 90.0%
3649913 5050.1.1.58 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C 0.61 49.0 4.17e-01 87.9% 85.3%
3350649 192.8.1.342 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › PHM7_cyt 0.61 46.0 4.75e-01 82.8% 83.2%
3791945 5054.1.1.2 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans 0.61 48.0 3.66e-01 83.8% 37.3%
3741919 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.61 50.0 5.00e-01 90.9% 87.0%
4593130 601.7.1.40 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Cas13a_C 0.61 47.0 3.19e-01 79.8% 39.1%
4889219 3937.1.1.3 alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Pannexin_like 0.61 53.0 3.85e-01 100.0% 94.4%
3890376 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.60 55.0 4.55e-01 99.0% 74.7%
5078448 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.59 51.0 4.91e-01 96.0% 84.5%
4463557 192.2.1.2 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.59 49.0 4.98e-01 88.9% 92.6%
3923143 633.23.1.17 alpha bundles › Bromodomain-like › Claudin › Claudin › DuoxA 0.59 48.0 3.63e-01 88.9% 95.4%
3694899 5069.1.1.71 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › DUF3176 0.58 47.0 3.79e-01 88.9% 45.5%
4181293 192.2.1.1 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.57 49.0 4.78e-01 93.9% 84.5%
3586391 3937.1.1.2 alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin 0.57 51.0 3.60e-01 99.0% 44.8%
4421947 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 0.57 44.0 2.67e-01 80.8% 27.3%
4946568 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 49.0 3.02e-01 99.0% 31.9%
5073431 1075.1.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain 0.56 48.0 3.05e-01 94.9% 35.4%
3883169 5001.1.1.3 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2 0.55 45.0 3.26e-01 87.9% 54.8%
5041285 4033.1.1.6 alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › AidB_N 0.55 42.0 3.50e-01 81.8% 48.0%
4951776 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 39.0 4.07e-01 76.8% 96.8%
4949872 241.1.1.0 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.53 24.0 2.26e-01 85.9% 29.2%
4023956 3871.1.1.1 alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.51 41.0 3.83e-01 89.9% 76.9%