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rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00530

Bact-Vir

rifcsphigho2_12_scaffold_16_prodigal-single.1__X__X__00530

Identity

Kingdom:
phage

Quality

89.0 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 high residues 3-91
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ldjA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.70 51.0 4.71e-01 77.5% 64.3%
1fafA00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.69 45.0 4.74e-01 96.6% 74.7%
7oq4Z01 1.20.120.950 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein DUF5062 0.67 49.0 4.81e-01 84.3% 71.4%
4bejB02 1.20.120.1240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Dynamin, middle domain 0.64 49.0 3.67e-01 82.0% 52.9%
2g8lB01 1.10.8.380 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 0.63 41.0 4.70e-01 92.1% 89.6%
2kp7A01 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.63 42.0 4.49e-01 100.0% 82.4%
1ywmA02 1.20.1270.150 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Surface Active Protein 0.63 41.0 4.42e-01 94.4% 78.9%
1ng6A01 1.10.1510.10 Mainly Alpha › Orthogonal Bundle › Hypothetical Protein Yqey; Chain: A; domain1 › Uncharacterised protein YqeY/AIM41, N-terminal domain 0.62 53.0 5.31e-01 95.5% 100.0%
4gc0A01 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.61 44.0 3.26e-01 76.4% 68.3%
1z19A01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.60 53.0 5.09e-01 97.8% 90.0%
5b00A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.60 48.0 3.39e-01 84.3% 97.3%
1svmA01 1.10.10.510 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain 0.59 38.0 3.87e-01 97.8% 65.6%
3akaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.58 52.0 4.29e-01 100.0% 88.9%
2qwoB00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.58 43.0 4.27e-01 77.5% 97.8%
3iqcA00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.57 38.0 3.52e-01 92.1% 51.3%
2gslF00 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.57 43.0 3.93e-01 83.1% 91.3%
5c8gB00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.57 49.0 4.58e-01 100.0% 94.0%
1s0pA01 1.25.40.330 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Adenylate cyclase-associated CAP, N-terminal domain 0.57 49.0 4.07e-01 100.0% 88.3%
2fp1B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.57 50.0 4.13e-01 100.0% 64.0%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.57 42.0 4.08e-01 96.6% 69.9%
4an8A02 1.10.132.100 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.57 49.0 4.50e-01 100.0% 83.6%
1f1mA00 1.20.120.240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Lipoprotein, type 6 0.56 45.0 3.79e-01 89.9% 52.5%
4mn0A00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 50.0 3.99e-01 100.0% 83.4%
1t6jA03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.56 47.0 4.54e-01 98.9% 83.5%
5k3hA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.56 42.0 3.87e-01 83.1% 66.1%
7pjdC01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 49.0 4.00e-01 98.9% 86.9%
1g2nA00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.55 47.0 3.51e-01 97.8% 54.5%
1ka1A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.55 49.0 3.72e-01 100.0% 43.4%
1qb2A00 1.10.260.30 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › Signal recognition particle, SRP54 subunit, M-domain 0.55 43.0 4.07e-01 91.0% 70.8%
4mndA02 1.20.120.1760 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CDP-alcohol phosphotransferase transmembrane (TM) domain 0.55 46.0 3.59e-01 91.0% 50.8%
1mwwB00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.55 47.0 4.30e-01 95.5% 87.3%
2i2oA00 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.55 36.0 2.80e-01 87.6% 28.4%
3jvoA00 1.10.3230.30 Mainly Alpha › Orthogonal Bundle › Hypothetical protein yqbg › Phage gp6-like head-tail connector protein 0.55 41.0 4.01e-01 79.8% 77.1%
6ig5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.55 47.0 4.11e-01 98.9% 63.0%
6z4xA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.54 43.0 3.65e-01 98.9% 51.0%
4dmbB00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.54 46.0 3.68e-01 97.8% 52.1%
5cbgA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 40.0 3.83e-01 78.7% 82.4%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.53 45.0 3.96e-01 93.3% 71.5%
2mjfB00 1.20.1440.260 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.52 41.0 4.11e-01 92.1% 91.6%
1xn8A00 1.10.3230.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein yqbg › YqbG-like 0.52 39.0 3.49e-01 82.0% 57.3%
4iggB06 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.52 44.0 3.40e-01 96.6% 65.6%
1w98B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.52 42.0 3.95e-01 98.9% 71.1%
3ci0K02 1.10.40.60 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › EpsJ-like 0.52 45.0 4.20e-01 100.0% 89.4%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 45.0 3.86e-01 100.0% 83.2%
1jswA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.51 44.0 3.90e-01 98.9% 67.9%
2yfaB01 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.51 41.0 3.74e-01 89.9% 65.5%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.51 37.0 3.72e-01 96.6% 73.7%
2p7vA00 1.20.120.1370 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Regulator of RNA polymerase sigma(70) subunit, domain 4 0.50 42.0 3.58e-01 93.3% 58.3%
1yfmA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.50 42.0 3.81e-01 96.6% 67.5%
3eeeA00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.50 41.0 3.24e-01 87.6% 73.9%
1nigA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.50 42.0 3.61e-01 93.3% 81.5%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3367692 3651.1.1.0 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain 0.71 50.0 4.25e-01 76.4% 46.4%
3508526 180.1.1.6 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › FIT 0.69 57.0 4.14e-01 89.9% 76.7%
4038795 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.66 57.0 5.35e-01 97.8% 92.7%
3644789 3281.1.2.0 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit 8 (Nqo8)-related 0.66 57.0 3.62e-01 98.9% 43.6%
3941994 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.63 54.0 4.28e-01 95.5% 78.4%
3269670 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.63 47.0 3.24e-01 79.8% 32.3%
5034120 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.62 53.0 3.91e-01 95.5% 78.8%
3176815 131.1.1.10 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_3 0.60 54.0 4.09e-01 100.0% 67.0%
3791606 131.1.1.10 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD_3 0.60 54.0 4.19e-01 100.0% 70.1%
3985471 131.2.1.0 ↗ alpha complex topology › PDEase-like › Poly A polymerase C-terminal region-like › Poly A polymerase C-terminal region-like 0.60 53.0 4.26e-01 100.0% 79.4%
3513394 604.33.1.0 ↗ alpha bundles › Spectrin repeat-like › Repulsive guidance molecule (RGM) N-terminal domain › Repulsive guidance molecule (RGM) N-terminal domain 0.60 52.0 4.34e-01 100.0% 53.9%
4993049 3754.1.1.1 ↗ alpha bundles › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Glycos_transf_4 0.60 52.0 3.67e-01 100.0% 44.3%
4953492 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.59 52.0 4.42e-01 100.0% 73.5%
3193680 109.4.1.2431 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_5 0.59 48.0 3.15e-01 89.9% 48.5%
3517981 186.1.1.11 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_2 0.58 50.0 4.78e-01 100.0% 84.8%
3693411 5069.1.1.4 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Ferric_reduct 0.58 43.0 3.27e-01 80.9% 39.6%
5068364 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.57 49.0 3.52e-01 100.0% 76.6%
4602904 6091.1.1.0 ↗ alpha bundles › Helical bundle domain in Endo-alpha-N-acetylgalactosaminidase › Helical bundle domain in Endo-alpha-N-acetylgalactosaminidase › Helical bundle domain in Endo-alpha-N-acetylgalactosaminidase 0.57 40.0 4.14e-01 96.6% 77.6%
4243491 632.24.1.4 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › GBS CAMP factor C-terminal domain › GBS CAMP factor C-terminal domain › FIVAR 0.57 39.0 4.16e-01 94.4% 85.3%
4110524 4979.2.1.1 ↗ alpha arrays › C-terminal domain of Hypothetical protein MPN330-like › XRN2-binding domain (XTBD) › XRN2-binding domain (XTBD) › XTBD 0.57 42.0 4.13e-01 83.1% 73.7%
3929122 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.56 47.0 3.47e-01 93.3% 55.9%
3334764 5059.1.1.24 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › PUNUT 0.56 47.0 3.29e-01 100.0% 64.9%
5046582 3921.1.1.3 ↗ alpha complex topology › Na(+)-translocating NADH-quinone reductase subunit D › Na(+)-translocating NADH-quinone reductase subunit D › Na(+)-translocating NADH-quinone reductase subunit D › GDT1 0.56 42.0 3.37e-01 80.9% 81.6%
3279327 108.1.1.26 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5 0.56 49.0 4.01e-01 100.0% 92.4%
5034381 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.55 47.0 4.45e-01 100.0% 80.9%
4978391 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.55 47.0 4.54e-01 95.5% 85.0%
4597624 3601.1.1.1 ↗ alpha complex topology › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Ad_Cy_reg 0.55 41.0 3.50e-01 82.0% 87.5%
3974363 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.55 49.0 3.46e-01 100.0% 75.8%
3209713 174.1.1.9 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › DUF1746 0.55 47.0 4.03e-01 97.8% 81.3%
3495102 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.55 50.0 3.74e-01 100.0% 84.7%
3824606 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.54 47.0 3.86e-01 100.0% 72.6%
3622768 101.1.10.13 ↗ alpha arrays › HTH › HTH › Cyclin-like › DUF3452 0.54 41.0 3.86e-01 100.0% 66.1%
3171529 5025.1.1.7 ↗ extended segments › PetL subunit of the cytochrome b6f complex › PetL subunit of the cytochrome b6f complex › PetL subunit of the cytochrome b6f complex › Erv26 0.53 46.0 4.17e-01 100.0% 93.6%
5003451 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.53 45.0 4.13e-01 100.0% 75.2%
4018032 174.1.1.18 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Erv26 0.53 45.0 3.83e-01 100.0% 71.9%
4045754 110.1.1.18 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death_Lrrd1 0.52 38.0 3.66e-01 100.0% 65.7%
3214534 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.52 45.0 4.16e-01 100.0% 88.3%
3604581 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.52 43.0 3.92e-01 91.0% 75.0%
3501915 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 38.0 2.79e-01 78.7% 45.3%
5012928 4044.1.1.0 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins 0.52 43.0 4.23e-01 94.4% 88.0%
3578256 5055.1.1.0 ↗ extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.52 32.0 3.57e-01 71.9% 80.0%
3230496 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.51 41.0 4.17e-01 92.1% 91.8%
3419702 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.50 44.0 3.74e-01 100.0% 92.3%