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PH2015_14_scaffold_1_prodigal-single.1__X__X__00043

Bact-Vir

PH2015_14_scaffold_1_prodigal-single.1__X__X__00043

Identity

Kingdom:
phage

Quality

86.1 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 6-76
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ew0A00 3.40.1740.10 Alpha Beta › 3-Layer(aba) Sandwich › VC0467-like › VC0467-like 0.57 44.0 3.35e-01 85.9% 94.9%
3kosA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 35.0 3.26e-01 73.2% 90.7%
3lupA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 36.0 2.99e-01 80.3% 96.8%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3484879 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.73 49.0 5.77e-01 78.9% 98.0%
5054711 887.1.1.1 ↗ a+b two layers › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal protein L30p/L7e › Ribosomal_L30 0.66 53.0 4.57e-01 91.5% 100.0%
3787695 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.66 52.0 3.38e-01 84.5% 33.7%
1223288 4246.1.1.0 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit 0.62 48.0 5.03e-01 84.5% 96.8%
5070342 4043.1.1.2 ↗ a+b complex topology › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_7 0.61 47.0 4.39e-01 84.5% 66.7%
5054775 4043.1.1.2 ↗ a+b complex topology › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › C-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_7 0.59 45.0 3.86e-01 84.5% 50.0%
3436491 227.1.1.11 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.56 46.0 3.71e-01 97.2% 67.5%
5061536 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.50 38.0 3.40e-01 81.7% 94.2%
D2 high residues 89-197
PDB
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.79 53.0 5.99e-01 100.0% 91.5%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.79 42.0 4.61e-01 81.7% 63.0%
7craA02 1.20.58.1480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.74 33.0 3.61e-01 100.0% 48.9%
6e1kA01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 57.0 5.69e-01 81.7% 97.3%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.72 45.0 5.33e-01 78.9% 93.2%
1ldjA03 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.71 36.0 3.53e-01 79.8% 44.3%
8ek4A01 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.70 49.0 4.54e-01 81.7% 58.6%
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 0.69 40.0 4.27e-01 79.8% 64.3%
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 0.68 44.0 4.31e-01 76.1% 60.2%
3bvxA02 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.68 47.0 4.76e-01 95.4% 70.3%
4it4A02 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 40.0 4.33e-01 79.8% 69.2%
2c5iT00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 39.0 4.23e-01 79.8% 67.0%
2gl2B00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 44.0 4.43e-01 74.3% 69.7%
3anwB00 1.20.58.2050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 40.0 3.45e-01 86.2% 42.0%
3gehA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.62 42.0 3.63e-01 72.5% 44.3%
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 0.62 56.0 4.33e-01 100.0% 81.6%
1l8dA00 1.10.287.510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.62 49.0 5.04e-01 83.5% 91.3%
3edvB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 46.0 4.29e-01 78.9% 63.2%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.61 45.0 4.97e-01 79.8% 98.8%
3rguB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.60 41.0 4.52e-01 100.0% 87.4%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 41.0 4.26e-01 86.2% 74.5%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 41.0 4.09e-01 77.1% 68.2%
4dylA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.60 54.0 4.14e-01 100.0% 75.6%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.60 44.0 4.50e-01 83.5% 79.4%
2z1qB04 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 43.0 4.02e-01 99.1% 59.6%
1uruA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.59 52.0 4.28e-01 100.0% 80.4%
2b5uA02 1.10.287.620 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix Hairpins 0.59 47.0 4.14e-01 85.3% 72.0%
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 0.59 52.0 4.05e-01 100.0% 74.3%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 38.0 3.95e-01 73.4% 70.3%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 39.0 4.03e-01 83.5% 71.4%
3ck6C02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.58 42.0 4.11e-01 85.3% 68.1%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.58 44.0 4.44e-01 80.7% 84.8%
1oj7A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.58 38.0 3.09e-01 100.0% 35.3%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.57 33.0 3.55e-01 95.4% 64.9%
3pe0A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 38.0 3.95e-01 82.6% 72.3%
2g38B00 1.20.1260.20 Mainly Alpha › Up-down Bundle › Ferritin › PPE superfamily 0.56 51.0 4.37e-01 100.0% 86.7%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 38.0 3.77e-01 86.2% 67.9%
1hciA03 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 40.0 3.94e-01 89.0% 69.2%
3u9jA00 1.20.120.520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like 0.54 47.0 4.18e-01 96.3% 98.7%
6vddA02 1.20.1060.10 Mainly Alpha › Up-down Bundle › Taq DNA Polymerase; Chain T, domain 4 › Taq DNA Polymerase; Chain T, domain 4 0.54 43.0 4.28e-01 85.3% 91.3%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.53 37.0 3.88e-01 100.0% 80.2%
5gl7A01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.53 40.0 3.48e-01 97.2% 52.4%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.53 46.0 4.51e-01 92.7% 99.1%
6i3mE01 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 39.0 3.66e-01 91.7% 62.8%
1oahA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 45.0 4.14e-01 100.0% 73.9%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.51 35.0 3.95e-01 78.9% 90.6%
4a4kA01 1.20.1500.20 Mainly Alpha › Up-down Bundle › YheA-like fold › 0.50 36.0 3.62e-01 76.1% 96.5%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3958796 150.8.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE 0.66 49.0 4.75e-01 79.8% 69.2%
5047712 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.66 38.0 4.49e-01 91.7% 82.7%
3692081 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.64 47.0 4.22e-01 76.1% 89.3%
3959888 3922.1.1.159 ↗ 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 › PPE 0.64 48.0 4.83e-01 81.7% 77.3%
3288726 150.8.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE 0.64 49.0 4.48e-01 81.7% 62.1%
4020464 1203.1.2.4 ↗ alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › Vps55 0.63 45.0 4.26e-01 73.4% 99.2%
3621508 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 0.63 48.0 4.04e-01 80.7% 74.4%
3726471 5038.2.1.1 ↗ alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like › MAPEG 0.63 56.0 5.25e-01 100.0% 83.0%
3600217 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.63 45.0 3.44e-01 100.0% 32.4%
3470687 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.62 49.0 4.11e-01 82.6% 53.3%
3701245 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.62 48.0 4.85e-01 87.2% 80.0%
3460430 3877.1.1.1 ↗ alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC › 60KD_IMP 0.62 40.0 3.56e-01 100.0% 45.2%
144301 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.62 41.0 4.81e-01 74.3% 100.0%
3707727 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.61 51.0 4.37e-01 99.1% 56.6%
3246610 109.26.1.6 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › TPR_NUP160_120_M 0.61 41.0 2.71e-01 75.2% 17.2%
3200160 604.7.1.0 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A 0.61 48.0 4.85e-01 85.3% 82.7%
4959128 632.18.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › hypothetical protein PA2901 › hypothetical protein PA2901 0.61 35.0 4.12e-01 96.3% 82.7%
5023303 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.60 40.0 3.96e-01 100.0% 64.3%
5034821 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.59 32.0 3.81e-01 89.9% 80.0%
3167884 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.59 43.0 3.40e-01 78.0% 40.0%
3896888 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 39.0 3.78e-01 82.6% 60.8%
3990438 106.1.1.0 ↗ alpha arrays › Globin-like › Globin-like › Globin-like 0.57 40.0 4.03e-01 72.5% 82.7%
3599020 5050.1.1.9 ↗ 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_1 0.56 41.0 3.22e-01 97.2% 37.7%
3659069 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.56 47.0 4.55e-01 89.0% 85.0%
3694833 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.55 45.0 4.24e-01 85.3% 93.8%
4994613 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 0.55 34.0 3.05e-01 90.8% 41.9%
4944891 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.53 47.0 3.91e-01 99.1% 96.5%
5081189 5059.1.1.0 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter 0.53 45.0 4.18e-01 92.7% 89.3%
4602079 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.52 44.0 3.52e-01 92.7% 93.3%
3611470 6004.1.1.0 ↗ extended segments › FATC domain › FATC domain › FATC domain 0.51 36.0 3.56e-01 100.0% 68.7%
3732883 5050.1.1.9 ↗ 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_1 0.51 43.0 3.55e-01 92.7% 90.2%
3288013 5050.1.1.9 ↗ 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_1 0.51 45.0 3.62e-01 94.5% 87.8%
5079419 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 0.50 44.0 3.60e-01 99.1% 96.3%
4959135 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.50 46.0 3.64e-01 100.0% 90.5%
3937290 5050.1.1.23 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › CLN3 0.50 41.0 3.50e-01 89.9% 80.5%