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NC_011054.1__YP_002014257.1__BOOMER_41__00041

Bact-Vir

NC_011054.1__YP_002014257.1__BOOMER_41__00041

Identity

Accession:
NC_011054 ↗
Kingdom:
phage

Quality

67.4 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 38-111
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.82 56.0 4.57e-01 77.0% 39.8%
1qv9A02 6.10.140.120 Special › Helix non-globular › Helix Hairpins › 0.74 64.0 5.80e-01 98.6% 83.5%
2nq2A00 1.10.3470.10 Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC 0.70 50.0 3.27e-01 74.3% 72.7%
3ieeA02 1.20.58.820 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Uncharacterised protein PF12889, C-terminal DUF3829 0.69 52.0 4.67e-01 79.7% 93.2%
1w9rA00 1.20.58.440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › choline binding protein A 0.69 50.0 4.31e-01 77.0% 62.2%
1fouA01 1.10.246.30 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.69 51.0 5.12e-01 78.4% 82.4%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.67 59.0 4.71e-01 100.0% 70.9%
1zvzA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.66 54.0 4.60e-01 90.5% 79.0%
1v4aA03 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.66 56.0 4.56e-01 100.0% 79.1%
2ot4A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.66 58.0 5.13e-01 98.6% 72.9%
3mxtA02 3.30.1300.10 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › Pantoate-beta-alanine ligase, C-terminal domain 0.65 45.0 4.12e-01 75.7% 54.0%
6lumG01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.64 54.0 4.76e-01 94.6% 87.5%
2lmgA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 54.0 5.45e-01 98.6% 93.2%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.64 45.0 4.20e-01 73.0% 67.4%
2v5cA03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.64 47.0 3.96e-01 79.7% 77.7%
1eq1A00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.63 56.0 4.33e-01 100.0% 57.2%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.62 53.0 4.68e-01 97.3% 75.2%
6nsjA00 1.25.40.600 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › AmiS/UreI transporter 0.62 55.0 4.15e-01 100.0% 82.4%
1lm3B00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.62 53.0 4.77e-01 97.3% 82.1%
1yq3C02 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.61 52.0 4.65e-01 97.3% 94.4%
2xgjA03 1.10.3380.30 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › 0.61 44.0 3.13e-01 75.7% 71.2%
3mvpA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 50.0 4.04e-01 93.2% 73.8%
6zhiB02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 53.0 5.12e-01 98.6% 88.0%
3fnrA01 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.60 53.0 4.30e-01 100.0% 54.5%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.60 50.0 4.30e-01 91.9% 67.2%
5xdcB01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.59 46.0 4.07e-01 97.3% 56.8%
6xpdA01 1.20.1510.10 Mainly Alpha › Up-down Bundle › Alpha-lytic protease prodomain-like › Cation efflux protein transmembrane domain 0.59 50.0 3.69e-01 95.9% 76.7%
4ysxC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.58 49.0 3.95e-01 95.9% 66.7%
1zylA03 1.20.1270.170 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 51.0 4.58e-01 97.3% 76.7%
3iv7A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.57 46.0 3.52e-01 98.6% 35.2%
4irnA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.56 44.0 3.85e-01 93.2% 54.6%
2x3fA02 3.30.1300.10 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › Pantoate-beta-alanine ligase, C-terminal domain 0.56 40.0 3.69e-01 75.7% 57.0%
3hl0A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.56 45.0 3.48e-01 98.6% 36.1%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 44.0 3.99e-01 93.2% 63.0%
1wvuA01 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.55 39.0 3.09e-01 74.3% 75.0%
2qgmA03 1.20.1440.30 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Biosynthetic Protein domain 0.55 42.0 3.75e-01 87.8% 93.1%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.53 48.0 4.45e-01 100.0% 86.8%
4f91B04 1.10.3380.10 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain 0.51 37.0 3.03e-01 82.4% 39.4%
1rcwB00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.51 46.0 3.29e-01 100.0% 95.3%
1iqpA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.50 42.0 3.93e-01 100.0% 75.5%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3597736 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.79 57.0 5.42e-01 75.7% 78.8%
3505840 1025.1.1.0 alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain 0.71 64.0 5.97e-01 100.0% 87.8%
4528425 101.11.1.1 alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.70 40.0 3.60e-01 83.8% 41.0%
3339772 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.70 63.0 5.10e-01 100.0% 78.6%
4932209 3843.1.1.6 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › MrpF_PhaF 0.70 51.0 5.01e-01 77.0% 77.5%
5009775 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.69 60.0 5.58e-01 97.3% 80.0%
4371507 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.69 61.0 5.66e-01 98.6% 81.1%
4501744 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.69 61.0 5.54e-01 98.6% 89.0%
3204106 605.4.1.0 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.69 53.0 5.17e-01 82.4% 76.2%
56672 150.3.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine 0.68 48.0 3.83e-01 73.0% 63.7%
3589395 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 0.68 57.0 5.58e-01 97.3% 86.3%
2527147 4266.1.1.3 alpha bundles › Hyaluronidase domain-like › Hyaluronidase post-catalytic domain-like › Hyaluronidase post-catalytic domain-like › NagJ_C 0.67 49.0 4.15e-01 77.0% 60.2%
4352674 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 0.67 60.0 5.28e-01 97.3% 72.4%
3231673 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.67 54.0 5.42e-01 87.8% 90.7%
3644752 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.66 58.0 4.58e-01 100.0% 68.1%
3222373 605.4.1.18 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein › PF29357 0.66 59.0 5.65e-01 98.6% 87.1%
2388285 601.1.1.1 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Vinculin 0.66 58.0 4.49e-01 98.6% 49.1%
5058566 3711.1.1.0 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.66 57.0 5.29e-01 93.2% 97.8%
4449533 3843.1.1.1 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › Oxidored_q2 0.65 47.0 4.39e-01 77.0% 64.2%
4931580 3543.1.1.2 alpha complex topology › Acid-activated urea channel › Acid-activated urea channel › Acid-activated urea channel › AmiS_UreI 0.65 58.0 4.48e-01 100.0% 77.0%
4933045 601.7.1.3 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › PaREP1 0.65 53.0 5.16e-01 93.2% 96.5%
5004728 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.65 57.0 5.20e-01 100.0% 87.0%
3972030 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.65 56.0 4.75e-01 100.0% 73.8%
3640243 605.4.1.0 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.65 53.0 5.37e-01 93.2% 90.7%
3823125 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.64 57.0 4.54e-01 100.0% 70.0%
5075878 632.15.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.64 52.0 5.14e-01 95.9% 83.7%
4858834 4163.1.1.1 alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.64 45.0 3.54e-01 73.0% 42.8%
4467968 605.4.1.0 alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.63 56.0 4.73e-01 97.3% 75.8%
5081307 159.1.2.1 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related › PRA-PH 0.63 44.0 4.12e-01 73.0% 64.5%
4879693 5054.1.1.0 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.63 54.0 4.52e-01 98.6% 67.9%
3923707 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.63 52.0 4.90e-01 98.6% 74.7%
2543302 5054.1.1.58 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › YVC1_C 0.62 54.0 4.20e-01 100.0% 52.0%
3236489 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.62 54.0 4.46e-01 97.3% 68.1%
3921501 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.62 54.0 3.88e-01 95.9% 72.7%
3615244 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.62 44.0 3.47e-01 74.3% 73.8%
140399 5069.1.3.1 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Sdh_cyt 0.61 52.0 4.30e-01 97.3% 73.6%
3202228 4266.1.1.0 alpha bundles › Hyaluronidase domain-like › Hyaluronidase post-catalytic domain-like › Hyaluronidase post-catalytic domain-like 0.61 45.0 3.70e-01 79.7% 71.4%
301683 5069.1.3.1 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › Sdh_cyt 0.60 51.0 4.26e-01 97.3% 74.1%
5004033 6155.1.1.1 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.60 41.0 3.85e-01 70.3% 64.4%
3921469 109.4.1.908 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_DOP1 0.60 41.0 2.90e-01 71.6% 67.1%
3736123 4121.1.1.0 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.59 42.0 2.94e-01 74.3% 58.8%
54353 4266.1.1.0 alpha bundles › Hyaluronidase domain-like › Hyaluronidase post-catalytic domain-like › Hyaluronidase post-catalytic domain-like 0.59 45.0 3.77e-01 81.1% 74.4%
5077470 4156.1.1.0 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like 0.59 41.0 3.71e-01 74.3% 74.3%
4881188 5054.1.1.0 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.58 50.0 4.01e-01 97.3% 70.5%
5071753 5065.1.1.1 alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › ABC-3 0.57 47.0 3.25e-01 91.9% 85.1%
3453205 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.57 49.0 4.09e-01 100.0% 62.1%
5010956 632.11.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.56 48.0 4.52e-01 100.0% 78.9%
4262515 610.4.1.1 alpha arrays › ERP29 C domain-like › YqeY domain › YqeY domain › YqeY 0.55 44.0 4.03e-01 87.8% 88.0%
3700052 5050.1.1.4 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Nucleoside_tran 0.55 47.0 4.08e-01 98.6% 60.8%
3652766 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.54 47.0 4.19e-01 100.0% 72.7%
4290562 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 40.0 3.53e-01 79.7% 57.3%
4016845 622.1.1.1 alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.52 47.0 4.45e-01 100.0% 91.1%