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JGI24723J26617_10000007_prodigal-single.1__X__X__00201

Bact-Vir

JGI24723J26617_10000007_prodigal-single.1__X__X__00201

Identity

Kingdom:
phage

Quality

78.5 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 4-134
PDB
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2imiB02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 36.0 3.57e-01 95.4% 58.6%
4qhpA05 1.25.50.10 Mainly Alpha › Alpha Horseshoe › Zincin-like fold › Peptidase M1, alanyl aminopeptidase, C-terminal domain 0.54 40.0 2.98e-01 98.5% 30.3%
3nnrA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 46.0 3.96e-01 91.6% 83.7%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.53 46.0 3.26e-01 93.9% 75.5%
3u64A00 1.25.40.920 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TRAP transporter T-component 0.52 44.0 3.57e-01 95.4% 91.9%
3himA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 44.0 3.89e-01 92.4% 89.5%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 35.0 3.55e-01 71.8% 85.8%
2a2fX02 1.20.58.670 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D 0.50 38.0 3.86e-01 87.8% 79.8%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3831187 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 35.0 3.09e-01 70.2% 90.7%
D2 high residues 139-248
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1jalA03 1.10.150.300 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Obg-related GTPase Ych/YyaF, coiled-coil domain 0.73 46.0 5.28e-01 84.5% 86.4%
2idgA00 1.10.3480.10 Mainly Alpha › Orthogonal Bundle › TorD-like › TorD-like 0.73 53.0 4.71e-01 76.4% 100.0%
3mpxA01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.72 63.0 5.08e-01 94.5% 69.4%
3lmfA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.72 62.0 6.30e-01 93.6% 98.2%
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.72 59.0 6.17e-01 88.2% 98.0%
8a1gC01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.71 49.0 4.10e-01 70.0% 85.6%
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.71 39.0 4.27e-01 97.3% 65.6%
1x8zB00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.71 60.0 5.49e-01 93.6% 76.2%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.70 63.0 5.63e-01 97.3% 88.7%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 58.0 5.18e-01 90.9% 67.5%
1ki1B01 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.69 62.0 5.05e-01 97.3% 84.4%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.69 59.0 4.19e-01 93.6% 89.5%
6tkyA03 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.66 45.0 4.37e-01 70.0% 79.5%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 43.0 5.07e-01 70.9% 100.0%
2oduA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 45.0 4.59e-01 71.8% 100.0%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.63 53.0 5.25e-01 91.8% 94.8%
6umqA01 1.20.930.60 Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A › 0.63 47.0 4.65e-01 96.4% 73.9%
4gycA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.63 53.0 4.24e-01 91.8% 81.8%
4hyjA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.63 53.0 4.18e-01 92.7% 80.1%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.63 36.0 3.84e-01 94.5% 63.0%
1xioA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.63 53.0 4.23e-01 91.8% 81.1%
1ezvC00 1.20.810.10 Mainly Alpha › Up-down Bundle › Cytochrome Bc1 Complex; Chain C › Cytochrome Bc1 Complex; Chain C 0.62 45.0 3.13e-01 76.4% 49.9%
5mi7A03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.61 54.0 4.13e-01 100.0% 52.3%
3cr3A00 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.61 47.0 3.96e-01 82.7% 97.4%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.61 51.0 5.13e-01 92.7% 95.5%
4nwpD00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.60 49.0 4.44e-01 87.3% 76.5%
1nzeA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.60 42.0 4.24e-01 72.7% 79.5%
6z74C02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.59 41.0 3.62e-01 70.9% 83.6%
1wvtA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.59 47.0 4.33e-01 87.3% 75.0%
3iqcA00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.59 41.0 4.05e-01 72.7% 77.3%
2or0A03 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 49.0 4.20e-01 94.5% 82.8%
7utzR02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.58 48.0 3.72e-01 92.7% 83.2%
3am6A00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.58 48.0 3.83e-01 90.0% 81.2%
2wb7A03 1.20.120.870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › pT26-6p, five-helical bundle domain 0.57 44.0 4.17e-01 82.7% 92.6%
4q5qB00 1.20.1050.130 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 47.0 4.00e-01 92.7% 81.9%
1e7pC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.56 47.0 3.67e-01 94.5% 76.4%
6q45G01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.56 41.0 3.73e-01 94.5% 57.5%
1lxlA00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.55 39.0 3.13e-01 73.6% 84.6%
1nigA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.53 45.0 4.10e-01 92.7% 71.9%
2hsbA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 38.0 3.71e-01 76.4% 90.5%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 37.0 3.43e-01 71.8% 57.3%
8cdaB03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 43.0 3.88e-01 90.9% 87.4%
3qc1A01 1.25.40.540 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family 0.53 42.0 3.81e-01 86.4% 90.7%
2p0vA01 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.52 45.0 3.04e-01 95.5% 98.6%
3kflA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.52 40.0 3.43e-01 95.5% 51.4%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 35.0 3.25e-01 96.4% 54.7%
3fnrA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.51 44.0 4.01e-01 93.6% 86.9%
7ep1B01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.51 39.0 3.06e-01 80.9% 54.1%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4520107 633.13.1.1 alpha bundles › Bromodomain-like › DsbB-like › DsbB-like › DsbB 0.75 69.0 6.33e-01 99.1% 100.0%
3919997 3615.1.1.0 alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain 0.73 61.0 5.97e-01 90.0% 91.7%
3814234 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.72 62.0 5.85e-01 91.8% 91.5%
3686811 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.72 61.0 5.14e-01 90.9% 66.1%
3707921 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.72 59.0 5.97e-01 89.1% 100.0%
3249291 3932.1.1.0 alpha bundles › CRISPR/Cas system-associated protein Csm6 6H domain › CRISPR/Cas system-associated protein Csm6 6H domain › CRISPR/Cas system-associated protein Csm6 6H domain 0.72 59.0 5.59e-01 89.1% 74.6%
3994389 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.71 62.0 4.43e-01 94.5% 51.9%
3410814 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.71 63.0 6.04e-01 97.3% 95.2%
3806117 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.71 62.0 5.51e-01 95.5% 100.0%
3801706 3817.1.1.1 alpha bundles › Peroxisomal biogenesis factor 19 › Peroxisomal biogenesis factor 19 › Peroxisomal biogenesis factor 19 › Pex19 0.71 53.0 5.00e-01 77.3% 79.8%
3830809 633.4.1.0 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.70 60.0 5.91e-01 93.6% 95.0%
3219385 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 62.0 4.39e-01 94.5% 53.7%
3705915 3615.1.1.0 alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain 0.70 61.0 5.96e-01 94.5% 96.7%
3512636 3930.1.1.6 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase › Dicer_PBD 0.69 59.0 5.86e-01 92.7% 91.3%
5039441 633.21.1.47 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › SPW 0.69 56.0 5.66e-01 89.1% 100.0%
3450864 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.69 60.0 5.40e-01 95.5% 98.7%
3647455 633.4.1.0 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.68 61.0 5.34e-01 98.2% 76.4%
4970978 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.68 55.0 5.67e-01 89.1% 94.3%
3742272 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.68 57.0 5.35e-01 90.9% 77.8%
3641736 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.68 60.0 5.25e-01 98.2% 84.2%
3814534 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.67 61.0 5.48e-01 99.1% 85.2%
3687207 633.4.1.0 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.67 57.0 5.52e-01 90.9% 86.7%
3177832 174.1.1.62 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › PF27705 0.67 58.0 5.13e-01 94.5% 79.4%
3408520 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.67 57.0 5.66e-01 93.6% 94.8%
3731168 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.67 57.0 5.88e-01 92.7% 99.0%
5016324 601.3.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.67 42.0 4.52e-01 71.8% 73.7%
3263668 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.67 53.0 5.48e-01 86.4% 100.0%
3833909 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.67 59.0 5.48e-01 98.2% 98.6%
3281206 192.29.1.52 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Anthrone_oxy 0.66 46.0 4.26e-01 72.7% 75.9%
4928468 633.12.1.1 alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 0.66 48.0 5.27e-01 89.1% 95.5%
3954068 633.23.1.7 alpha bundles › Bromodomain-like › Claudin › Claudin › DUF5336 0.66 56.0 5.39e-01 93.6% 97.6%
3829890 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.66 57.0 5.31e-01 95.5% 100.0%
4962556 633.10.1.0 alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.65 53.0 5.32e-01 90.0% 96.5%
3484872 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.64 52.0 4.89e-01 90.0% 97.0%
3616490 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.63 56.0 5.05e-01 97.3% 98.0%
3876785 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.63 52.0 5.38e-01 95.5% 98.0%
4417592 3281.1.1.1 alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related › Proton_antipo_M 0.62 55.0 3.61e-01 99.1% 33.7%
5064406 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.62 53.0 5.14e-01 92.7% 93.3%
3401149 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 45.0 3.61e-01 75.5% 52.2%
3412554 174.1.1.1 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.61 53.0 5.12e-01 96.4% 91.2%
3331975 3930.1.1.0 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.60 50.0 4.84e-01 92.7% 96.8%
3652633 3930.1.1.0 alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase 0.59 49.0 4.69e-01 92.7% 91.5%
3578534 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.57 41.0 4.23e-01 75.5% 92.4%
3968928 150.1.2.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Heme oxygenase/Ribonucleotide reductase 0.52 44.0 3.38e-01 94.5% 52.5%