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KX925554.1__APC46346.1__X__00084

Bact-Vir

KX925554.1__APC46346.1__X__00084

Identity

Accession:
KX925554 ↗
Kingdom:
phage

Quality

86.3 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 medium residues 1-73
PDB
Domain cluster: representative
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1g2rA00 3.30.1230.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › YlxR-like 0.65 46.0 4.25e-01 75.3% 58.5%
3axjB01 1.20.58.190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 1 0.62 46.0 3.63e-01 79.5% 57.4%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 42.0 3.50e-01 75.3% 82.1%
3purA03 1.20.58.1360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 40.0 3.56e-01 74.0% 91.8%
3s6sB00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.54 40.0 3.09e-01 80.8% 91.4%
4hubG01 3.30.70.1730 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein L10, N-terminal RNA-binding domain 0.53 40.0 3.08e-01 80.8% 41.4%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3896892 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.61 47.0 3.82e-01 84.9% 62.1%
3381159 3791.1.1.1 alpha arrays › EDS1-PAD4 (EP) domain › EDS1-PAD4 (EP) domain › EDS1-PAD4 (EP) domain › EDS1_EP 0.56 37.0 2.83e-01 74.0% 29.4%
5048081 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 39.0 3.89e-01 72.6% 89.3%
4968781 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.53 41.0 3.47e-01 90.4% 77.1%
D2 medium residues 74-142
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2xmoA02 1.10.246.180 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.78 55.0 5.14e-01 73.9% 60.5%
1b10A00 1.10.790.10 Mainly Alpha › Orthogonal Bundle › Major Prion Protein › Prion/Doppel protein, beta-ribbon domain 0.74 57.0 4.97e-01 84.1% 57.7%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 54.0 5.17e-01 78.3% 67.9%
4hiaA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.72 51.0 3.82e-01 85.5% 29.5%
3umgA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.71 47.0 4.74e-01 76.8% 67.6%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.70 51.0 4.63e-01 87.0% 57.6%
2efeA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.70 50.0 4.80e-01 79.7% 65.4%
1cf7B00 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 0.69 54.0 5.08e-01 94.2% 70.7%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.68 51.0 3.96e-01 78.3% 61.5%
5k2xA00 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.68 51.0 3.15e-01 81.2% 88.4%
1jkvA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 48.0 3.40e-01 73.9% 26.9%
3fhnA04 1.20.58.670 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D 0.68 46.0 3.70e-01 75.4% 37.4%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 55.0 4.94e-01 89.9% 67.4%
5svlA01 1.10.287.940 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › atp-gated p2x4 ion channel 0.66 51.0 5.19e-01 82.6% 98.5%
3e6sA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.66 49.0 3.78e-01 79.7% 66.0%
2bskB00 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.66 54.0 5.61e-01 89.9% 95.4%
6vqqA01 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.65 53.0 3.54e-01 88.4% 42.8%
3bg2A03 1.10.3410.10 Mainly Alpha › Orthogonal Bundle › putative deoxyguanosinetriphosphate triphosphohydrolase fold › putative deoxyguanosinetriphosphate triphosphohydrolase like domain 0.65 58.0 5.15e-01 97.1% 72.9%
1jb0F00 1.10.8.110 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Photosystem I, reaction centre, subunit PsaF 0.65 46.0 3.66e-01 78.3% 36.9%
3b2eF00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 44.0 4.67e-01 78.3% 79.0%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.64 44.0 4.52e-01 73.9% 73.5%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 46.0 4.45e-01 75.4% 72.7%
3bg2A01 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.63 51.0 3.77e-01 89.9% 50.3%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 46.0 4.61e-01 81.2% 76.1%
2nsfA01 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.61 50.0 3.86e-01 91.3% 71.7%
4q5nA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 44.0 3.77e-01 89.9% 48.2%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.60 42.0 3.52e-01 85.5% 41.9%
3h6pC00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.59 46.0 5.06e-01 81.2% 100.0%
1kqfC00 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.59 54.0 3.78e-01 100.0% 75.5%
2x6hA03 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.59 42.0 3.03e-01 75.4% 83.5%
2xokP00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.58 41.0 4.09e-01 78.3% 70.3%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.58 50.0 4.44e-01 94.2% 69.7%
2itbB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 48.0 3.49e-01 95.7% 83.3%
3qxzA02 1.10.12.10 Mainly Alpha › Orthogonal Bundle › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › Lyase 2-enoyl-coa Hydratase, Chain A, domain 2 0.54 39.0 4.12e-01 84.1% 88.3%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3563012 142.1.1.22 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › SCAF11-like_C 0.86 61.0 5.79e-01 76.8% 63.7%
3261624 3470.1.1.0 extended segments › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain 0.83 58.0 6.54e-01 78.3% 100.0%
4933119 604.39.1.3 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › ECF-ribofla_trS 0.82 76.0 5.42e-01 100.0% 40.0%
4019813 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.79 66.0 4.53e-01 91.3% 37.8%
3176131 142.1.1.5 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › SRI 0.78 63.0 5.45e-01 91.3% 57.1%
3416386 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.77 57.0 5.46e-01 87.0% 67.5%
3961186 103.9.1.0 alpha arrays › RuvA-C › RanGAP2 N-terminal domain › RanGAP2 N-terminal domain 0.76 63.0 5.57e-01 89.9% 77.0%
3738949 5051.1.1.3 alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › SSF 0.76 68.0 3.91e-01 98.6% 54.8%
3739839 5063.1.1.0 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK 0.76 60.0 5.17e-01 89.9% 54.5%
154953 223.1.1.25 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_9 0.74 53.0 3.91e-01 79.7% 29.2%
3961831 103.4.1.7 alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › DUF1290 0.72 56.0 4.89e-01 84.1% 59.0%
4527330 7010.1.1.0 alpha arrays › Activation-binding domain of RNA polymerase II mediator › Activation-binding domain of RNA polymerase II mediator › Activation-binding domain of RNA polymerase II mediator 0.72 56.0 5.60e-01 85.5% 92.9%
3739207 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.72 54.0 4.87e-01 87.0% 58.9%
3436965 3711.1.1.0 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.71 60.0 5.45e-01 94.2% 80.0%
2832675 2006.1.4.8 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_5 0.71 62.0 4.41e-01 97.1% 43.4%
3299872 5063.1.1.3 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › NADH-u_ox-rdase 0.71 59.0 5.55e-01 95.7% 75.3%
3455488 2006.1.4.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.71 57.0 6.02e-01 87.0% 100.0%
1676535 3989.1.1.1 alpha arrays › SidC C-terminal domain › SidC C-terminal domain › SidC C-terminal domain › SidC_C 0.70 48.0 3.98e-01 71.0% 39.8%
3389329 5076.1.1.1 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.70 55.0 3.57e-01 88.4% 18.8%
4170537 230.3.1.1 a+b two layers › T-fold › Elongation factor Ts (EF-Ts), dimerisation domain › Elongation factor Ts (EF-Ts), dimerisation domain › EF_TS 0.70 59.0 4.76e-01 92.8% 68.5%
3695830 633.24.1.7 alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain › TMD_POM152 0.70 50.0 4.65e-01 75.4% 64.7%
4025809 604.6.1.22 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › EMC4 0.69 54.0 4.56e-01 82.6% 54.5%
5051890 1076.1.1.1 alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like 0.69 54.0 3.87e-01 91.3% 27.9%
4868760 6108.1.1.3 alpha bundles › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Middle and GTPase effector domains in dynamin-related proteins › Dynamin_M 0.69 55.0 4.02e-01 87.0% 32.8%
3736764 3711.1.1.0 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.69 53.0 3.97e-01 85.5% 45.0%
3453796 7519.1.1.11 a/b three-layered sandwiches › ATP synthase (F1-ATPase), gamma subunit › ATP synthase (F1-ATPase), gamma subunit › ATP synthase (F1-ATPase), gamma subunit › Rick_17kDa_Anti, PF29034 0.68 54.0 4.70e-01 87.0% 56.2%
3714508 142.1.1.0 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.68 50.0 4.66e-01 78.3% 63.5%
4973147 103.4.1.30 alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › PF28863 0.67 56.0 5.01e-01 92.8% 66.3%
5008061 1075.1.1.67 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › 12TM_1 0.66 54.0 4.00e-01 92.8% 33.8%
3252296 601.55.1.1 alpha bundles › Four-helical up-and-down bundle › anti-complement domain of BBK32 › anti-complement domain of BBK32 › NCA2 0.66 52.0 4.70e-01 85.5% 94.7%
3359419 185.1.1.4 alpha superhelices › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin/Protein HNS-dependent expression A HdeA › Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin › Prolamin_like 0.66 44.0 4.18e-01 78.3% 56.5%
56672 150.3.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine 0.66 52.0 3.95e-01 82.6% 45.9%
5022551 3788.1.1.0 alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.65 56.0 4.67e-01 94.2% 59.2%
3347379 3470.1.1.26 extended segments › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › Glycophorin-A transmembrane domain › DUF543 0.65 50.0 5.10e-01 87.0% 89.2%
3186937 148.1.1.17 alpha arrays › Histone-like › Histone-related › Histone › CENP-T_C 0.65 53.0 4.67e-01 91.3% 64.8%
3174080 6169.1.1.0 extended segments › Transmembrane segment of lysosome-associated membrane glycoprotein 2 › Transmembrane segment of lysosome-associated membrane glycoprotein 2 › Transmembrane segment of lysosome-associated membrane glycoprotein 2 0.65 51.0 4.78e-01 89.9% 90.0%
4663861 5069.1.3.78 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › MIS13 0.64 52.0 4.94e-01 97.1% 75.0%
3987595 5042.1.1.1 extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › CorA 0.64 46.0 4.82e-01 79.7% 82.8%
1656448 245.1.1.1 a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.63 53.0 4.69e-01 92.8% 84.3%
3783474 604.12.1.71 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › TMD_POM152 0.63 48.0 4.11e-01 87.0% 50.4%
None 0.63 51.0 3.56e-01 92.8% 29.2%
4234794 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.62 53.0 3.65e-01 97.1% 28.2%
4094756 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.62 52.0 3.65e-01 98.6% 28.0%
4637522 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.62 52.0 4.45e-01 95.7% 61.7%
4149728 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.61 52.0 4.98e-01 97.1% 86.3%
4333013 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.61 52.0 5.00e-01 97.1% 83.7%
3733951 5042.1.1.0 extended segments › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region › Magnesium transport protein CorA, transmembrane region 0.61 45.0 4.49e-01 79.7% 77.1%
3193842 145.1.1.0 alpha arrays › F-box domain › F-box domain › F-box domain 0.61 52.0 4.26e-01 94.2% 68.8%
3598977 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 0.57 52.0 4.81e-01 98.6% 81.2%
4188764 7014.1.1.1 alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › BacA 0.54 41.0 3.46e-01 82.6% 74.2%