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JX006077.1__AFM10400.1__PIS_011__00011

Bact-Vir

JX006077.1__AFM10400.1__PIS_011__00011

Identity

Accession:
JX006077 ↗
Kingdom:
phage

Quality

91.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Saccharomonospora_phage_PIS_136

TaxID: 182851

Cluster

View cluster (3 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 51-177
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13398.13 best Peptidase_M50B 95.0 7.10e-27 100.0% 62.7%
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 38.0 4.27e-01 70.1% 76.3%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 37.0 4.67e-01 83.5% 96.0%
3u8vA00 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.60 37.0 4.38e-01 85.0% 92.8%
2r0rB00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.59 31.0 3.73e-01 100.0% 78.2%
7c1iA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.58 40.0 4.33e-01 83.5% 88.0%
2jheA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 32.0 3.84e-01 70.9% 81.5%
1i6zA00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.57 41.0 4.02e-01 73.2% 76.3%
2a0bA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.56 40.0 4.14e-01 82.7% 78.8%
1r2jA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.56 43.0 4.15e-01 89.0% 70.8%
1ug7A00 1.20.120.360 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Axin interactor, dorsalization-associated protein, N-terminal domain 0.56 42.0 4.24e-01 85.0% 78.9%
2yhcA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.55 39.0 3.29e-01 89.0% 43.5%
1yo7A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.55 40.0 4.10e-01 89.8% 79.2%
2vkjA00 1.20.58.2030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 36.0 3.94e-01 81.1% 80.2%
5oklA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.55 35.0 3.84e-01 96.9% 80.2%
6le1A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 29.0 3.74e-01 96.9% 95.6%
2bb5A01 1.50.10.20 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.53 43.0 3.29e-01 86.6% 47.0%
1hh2P03 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.53 30.0 3.66e-01 100.0% 88.6%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.52 46.0 4.31e-01 100.0% 77.5%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 39.0 3.96e-01 76.4% 95.9%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.52 35.0 3.92e-01 90.6% 89.7%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.52 34.0 4.02e-01 78.7% 100.0%
4lctB00 1.25.40.570 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 37.0 2.75e-01 75.6% 27.6%
3beeA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 33.0 3.84e-01 90.6% 90.1%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 43.0 4.21e-01 88.2% 91.9%
3gz1A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 37.0 3.59e-01 78.0% 66.0%
3zc0D00 1.20.58.2140 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 42.0 3.68e-01 88.2% 67.9%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3284904 4070.1.1.4 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50B 0.96 93.0 7.44e-01 100.0% 58.2%
3330299 4070.1.1.4 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50B 0.90 87.0 6.88e-01 100.0% 55.9%
4033957 4070.1.1.4 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50B 0.90 86.0 6.76e-01 100.0% 58.3%
5069993 4070.1.1.4 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50B 0.80 47.0 4.13e-01 100.0% 40.8%
5023000 4070.1.1.2 ↗ alpha arrays › FtsH protease domain-like › FtsH protease domain-like › FtsH protease domain-like › Peptidase_M50 0.76 44.0 4.18e-01 100.0% 49.7%
3743018 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.73 38.0 5.25e-01 87.4% 100.0%
4933335 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.68 38.0 4.76e-01 86.6% 87.5%
3252144 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.67 37.0 4.99e-01 89.0% 100.0%
3268622 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.66 41.0 4.46e-01 75.6% 74.3%
3879426 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.66 38.0 4.61e-01 85.0% 88.0%
3272556 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.64 40.0 3.44e-01 78.0% 40.5%
5053124 109.7.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.64 33.0 4.11e-01 85.8% 82.7%
429313 109.4.1.288 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nro1_C 0.63 43.0 4.14e-01 83.5% 60.5%
3641586 604.12.1.48 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vwaint 0.62 42.0 4.39e-01 85.0% 75.7%
2388821 601.13.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › Flagellar export chaperone FliS › Flagellar export chaperone FliS › FliS 0.62 44.0 4.49e-01 73.2% 81.3%
3802176 604.16.1.3 ↗ alpha bundles › Spectrin repeat-like › Hypothetical membrane protein Ta0354, soluble domain › Hypothetical membrane protein Ta0354, soluble domain › Vwaint 0.62 42.0 4.60e-01 84.3% 84.8%
3440212 601.18.1.13 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › Vwaint 0.61 42.0 4.60e-01 85.0% 85.7%
3633107 5057.1.1.0 ↗ alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore 0.60 41.0 4.53e-01 85.8% 91.6%
5029773 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.59 33.0 4.10e-01 90.6% 91.9%
3744833 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.59 35.0 3.34e-01 81.9% 47.1%
4002826 604.12.1.9 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ATG1-like_MIT2 0.58 39.0 4.31e-01 80.3% 86.0%
4195415 3755.3.1.363 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › T1-F 0.57 39.0 3.95e-01 77.2% 69.6%
3942221 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.56 31.0 3.89e-01 70.9% 90.7%
3738202 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.54 41.0 2.91e-01 81.1% 62.9%
3592403 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 41.0 3.01e-01 81.9% 35.7%
3752057 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 39.0 3.12e-01 78.0% 58.9%
3346986 3711.1.1.4 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DOG1 0.52 47.0 3.95e-01 96.1% 97.6%
3517416 109.4.1.363 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Tcf25 0.52 43.0 3.14e-01 92.1% 91.2%
3813462 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 41.0 4.09e-01 91.3% 80.0%
3528255 109.4.1.1287 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_6, TPR_8, TPR_16 0.51 40.0 2.88e-01 82.7% 71.5%
3789018 109.4.1.17 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin 0.51 42.0 2.95e-01 90.6% 43.3%
3737000 109.4.1.493 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Noc2 0.50 42.0 2.78e-01 92.9% 23.8%
3877742 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 0.50 43.0 3.42e-01 96.1% 55.6%
D2 medium residues 178-238
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
8gy0A01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.77 68.0 4.34e-01 98.4% 27.4%
3go5A04 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 36.0 3.62e-01 73.8% 49.2%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.65 47.0 4.01e-01 96.7% 46.1%
4px7A00 1.20.144.10 Mainly Alpha › Up-down Bundle › Vanadium-containing Chloroperoxidase; domain 1 › Phosphatidic acid phosphatase type 2/haloperoxidase 0.65 56.0 3.75e-01 100.0% 88.8%
8h6qD01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.63 52.0 3.44e-01 100.0% 20.2%
5dz2A00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.63 53.0 3.42e-01 100.0% 19.6%
3sjqC00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 57.0 5.15e-01 100.0% 80.0%
2qgnA02 1.10.287.890 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Crystal structure of tRNA isopentenylpyrophosphate transferase (bh2366) domain 0.61 51.0 4.68e-01 93.4% 89.0%
1u5eA01 6.10.250.220 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 45.0 4.79e-01 88.5% 96.2%
1kutA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 53.0 4.04e-01 100.0% 55.6%
1kpsC00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.54 40.0 3.04e-01 82.0% 76.9%
2qhaA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.52 45.0 2.82e-01 96.7% 32.4%
2ediA01 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.51 39.0 2.98e-01 86.9% 76.9%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4569633 141.1.1.4 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › Terpene_synth_C 0.76 69.0 4.20e-01 98.4% 19.0%
3340292 141.1.1.4 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › Terpene_synth_C 0.76 69.0 4.26e-01 100.0% 21.2%
3231776 101.1.1.528 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_72 0.72 55.0 5.26e-01 100.0% 70.0%
3243495 101.1.1.289 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HOCHOB 0.70 45.0 4.73e-01 86.9% 72.7%
4043670 192.4.1.26 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Nlig-Ia 0.69 51.0 4.78e-01 91.8% 64.0%
1086728 141.1.1.8 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › Terpene_syn_C_2 0.67 57.0 3.61e-01 100.0% 18.5%
4951266 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 0.63 57.0 3.42e-01 100.0% 15.3%
5035232 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 0.63 57.0 5.46e-01 100.0% 88.6%
3200311 145.1.1.1 ↗ alpha arrays › F-box domain › F-box domain › F-box domain › F-box 0.62 45.0 4.10e-01 77.0% 81.2%
3194355 101.1.2.517 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc82, HTH_9, POLR3C_WHD 0.61 56.0 3.22e-01 100.0% 11.3%
4208015 192.4.1.26 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Nlig-Ia 0.58 41.0 4.01e-01 91.8% 65.7%
3686518 101.1.2.384 ↗ alpha arrays › HTH › HTH › winged helix domain › Myb_DNA-bind_8 0.55 41.0 4.23e-01 82.0% 94.5%
3279597 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.53 46.0 3.90e-01 100.0% 61.0%
4957080 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 35.0 3.69e-01 80.3% 76.4%
4287728 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.51 44.0 2.82e-01 100.0% 47.4%
3692197 101.1.3.9 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Myb_DNA-bind_8 0.50 38.0 4.02e-01 85.2% 100.0%