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pre1_saliva_scaffold_3_prodigal-single.1__X__X__00109

Bact-Vir

pre1_saliva_scaffold_3_prodigal-single.1__X__X__00109

Identity

Kingdom:
phage

Quality

89.5 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 28-131
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rh3A01 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.67 41.0 3.78e-01 74.0% 47.4%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.65 46.0 4.65e-01 100.0% 71.7%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.64 45.0 4.88e-01 98.1% 88.2%
4i0xG00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.64 41.0 4.87e-01 75.0% 98.5%
3ok8A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.64 42.0 3.23e-01 74.0% 31.5%
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 0.62 41.0 3.13e-01 73.1% 30.3%
3kr9A02 1.10.287.1890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 36.0 4.38e-01 84.6% 96.7%
2vs0A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.61 39.0 4.35e-01 75.0% 81.7%
2hroA02 1.10.274.10 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › PtsI, HPr-binding domain 0.61 43.0 4.05e-01 95.2% 59.4%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.61 48.0 5.03e-01 100.0% 95.7%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 56.0 5.50e-01 97.1% 92.7%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 55.0 5.47e-01 97.1% 92.7%
1t72A02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.60 47.0 4.85e-01 97.1% 88.8%
2uxwA04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.60 38.0 3.53e-01 71.2% 50.0%
2zy9A03 1.10.357.20 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › SLC41 divalent cation transporters, integral membrane domain 0.60 51.0 4.36e-01 100.0% 56.9%
1sumB02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.60 48.0 4.65e-01 100.0% 77.1%
3eabE00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.60 42.0 4.52e-01 90.4% 87.2%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.60 35.0 4.28e-01 76.9% 89.7%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.60 54.0 5.40e-01 98.1% 93.6%
2i0mA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.59 49.0 4.87e-01 98.1% 87.7%
1oahA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.58 39.0 3.51e-01 76.0% 50.0%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.58 52.0 4.48e-01 99.0% 72.0%
1zvzA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.58 39.0 3.74e-01 86.5% 58.1%
3ezhA00 1.20.120.960 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase NarX, sensor domain 0.58 37.0 3.60e-01 86.5% 57.9%
1ug3A02 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.58 38.0 3.53e-01 92.3% 53.1%
2wzkA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.58 43.0 4.28e-01 97.1% 75.5%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.57 41.0 3.11e-01 74.0% 68.6%
6p73A02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 39.0 3.50e-01 84.6% 51.7%
1ugoA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.56 46.0 4.70e-01 100.0% 91.9%
2d1lA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.56 39.0 2.99e-01 73.1% 48.6%
3nvoB02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.56 50.0 4.88e-01 100.0% 90.5%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 46.0 4.61e-01 90.4% 88.5%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.56 47.0 4.79e-01 100.0% 95.1%
1tf5A04 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.55 41.0 3.49e-01 79.8% 52.2%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.55 40.0 3.53e-01 87.5% 53.8%
6h2dS01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.55 48.0 3.78e-01 97.1% 94.6%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 45.0 4.64e-01 93.3% 92.1%
3zevB00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 48.0 3.52e-01 100.0% 69.7%
1i6zA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.55 50.0 4.55e-01 100.0% 79.3%
3l39A01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.54 45.0 3.69e-01 100.0% 47.5%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.54 33.0 3.20e-01 93.3% 52.9%
3r7tA02 1.10.300.10 Mainly Alpha › Orthogonal Bundle › Adenylosuccinate Synthetase, subunit A; domain 2 › Adenylosuccinate Synthetase, subunit A, domain 2 0.54 37.0 3.94e-01 71.2% 94.5%
2v0pA00 1.25.40.540 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family 0.54 48.0 3.80e-01 100.0% 71.6%
6t4hA03 1.10.3060.10 Mainly Alpha › Orthogonal Bundle › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA 0.54 44.0 3.73e-01 88.5% 76.7%
2ficB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.53 38.0 3.06e-01 74.0% 45.3%
2hjmA01 1.20.120.460 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like 0.53 39.0 4.25e-01 81.7% 91.9%
2c12A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.52 41.0 3.85e-01 96.2% 68.5%
2x0cA01 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.52 47.0 3.94e-01 100.0% 68.5%
1x8zB00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.50 43.0 3.85e-01 93.3% 74.1%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3655748 601.1.2.118 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › CASP_dom 0.69 50.0 4.44e-01 76.0% 91.2%
4376480 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.68 39.0 4.04e-01 78.8% 59.0%
3433667 611.9.1.4 ↗ alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain › Rx_N 0.67 41.0 3.57e-01 74.0% 41.3%
3959988 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 0.67 58.0 5.65e-01 100.0% 85.8%
4025954 3758.1.1.0 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.67 58.0 4.35e-01 100.0% 39.2%
3962352 192.29.1.146 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF2231 0.65 50.0 4.40e-01 90.4% 54.9%
3593724 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.65 57.0 5.35e-01 100.0% 79.2%
2722819 3758.2.1.1 ↗ alpha bundles › Bacterial hemolysins-like › Biopolymer transport protein ExbB › Biopolymer transport protein ExbB › MotA_ExbB 0.65 55.0 4.28e-01 94.2% 74.2%
3237761 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.64 50.0 5.16e-01 94.2% 86.0%
3678505 3567.1.1.88 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › PGG 0.63 45.0 4.01e-01 75.0% 84.5%
3591291 1076.1.1.1 ↗ alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like 0.62 47.0 3.77e-01 78.8% 69.3%
3350514 3922.1.1.145 ↗ 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 › KIF21A_4th 0.62 36.0 3.07e-01 81.7% 36.9%
3228563 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.62 51.0 4.75e-01 100.0% 70.4%
3794663 604.3.1.27 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › EMC4 0.62 51.0 5.18e-01 100.0% 93.0%
3579522 604.1.1.98 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin_Anc-1 0.61 50.0 5.01e-01 94.2% 85.7%
3474661 604.3.1.1 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.61 50.0 4.90e-01 94.2% 80.0%
5005528 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.61 47.0 4.85e-01 93.3% 86.0%
3801688 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.60 49.0 4.91e-01 94.2% 85.7%
4319295 4006.1.1.1 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF 0.59 38.0 3.80e-01 76.0% 62.9%
3374084 604.1.1.61 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF6857 0.59 48.0 3.92e-01 94.2% 46.7%
1206502 604.5.1.2 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.59 49.0 4.87e-01 98.1% 87.7%
4961236 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.59 52.0 4.40e-01 100.0% 65.0%
5047547 310.2.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.58 49.0 4.76e-01 99.0% 82.6%
3219809 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 0.58 40.0 3.96e-01 76.0% 67.3%
3214189 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.56 47.0 4.74e-01 97.1% 91.4%
5027736 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.56 47.0 4.00e-01 94.2% 57.2%
5077574 1075.1.2.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.56 49.0 4.36e-01 100.0% 86.5%
3471400 5050.1.1.31 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › SLC52_ribofla_tr 0.56 48.0 4.02e-01 100.0% 53.7%
3492279 4006.1.1.0 ↗ alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain 0.55 34.0 3.36e-01 84.6% 55.7%
3201166 604.7.1.0 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A 0.55 49.0 4.48e-01 97.1% 85.2%
5020110 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 47.0 4.77e-01 94.2% 99.0%
3927586 3890.1.1.1 ↗ alpha bundles › Transmembrane Bax inhibitor motif (TMBIM) proteins › Transmembrane Bax inhibitor motif (TMBIM) proteins › Transmembrane Bax inhibitor motif (TMBIM) proteins › Bax1-I 0.55 48.0 3.83e-01 100.0% 97.8%
2967092 192.29.1.298 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › PF30778 0.55 47.0 4.39e-01 93.3% 89.0%
5065286 129.1.1.0 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like 0.55 46.0 4.51e-01 91.3% 96.5%
4959408 1075.1.1.38 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › FLQE3_permease 0.55 48.0 3.78e-01 100.0% 79.1%
3683615 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.55 45.0 3.49e-01 99.0% 38.8%
1147932 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.55 34.0 3.74e-01 76.0% 75.3%
3727838 5050.1.1.10 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_2 0.55 46.0 3.66e-01 100.0% 43.0%
3879536 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.54 47.0 3.33e-01 98.1% 73.8%
4466954 5050.1.1.25 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › TLC 0.54 47.0 3.62e-01 100.0% 40.8%
4024723 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.52 41.0 3.35e-01 87.5% 43.4%
3922588 3559.1.1.40 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Mediator of RNA polymerase II transcription subunit 22 › Bap31 0.52 45.0 3.88e-01 94.2% 72.1%
3496002 604.5.1.0 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) 0.52 44.0 4.02e-01 96.2% 69.9%
4027540 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.52 49.0 4.16e-01 100.0% 66.3%
3599875 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 0.52 38.0 3.41e-01 76.0% 79.3%
3997336 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.51 39.0 3.65e-01 78.8% 65.6%