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NC_031255.2__YP_009303442.1__BJD60_gp59__00059

Bact-Vir

NC_031255.2__YP_009303442.1__BJD60_gp59__00059

Identity

Accession:
NC_031255 ↗
Kingdom:
phage

Quality

83.0 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 1-70
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w36B03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.82 45.0 2.87e-01 71.4% 12.7%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 66.0 5.54e-01 91.4% 67.9%
2fnqA02 1.20.245.10 Mainly Alpha › Up-down Bundle › Lipoxygenase-1; domain 5 › Lipoxygenase-1; Domain 5 0.61 48.0 2.96e-01 85.7% 48.6%
2ia1A01 3.30.500.20 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › BH3703-like domains 0.60 42.0 3.42e-01 71.4% 65.5%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.51 32.0 3.27e-01 75.7% 64.8%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3394655 603.1.1.104 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › 7tm_7 0.80 60.0 3.78e-01 97.1% 16.7%
3630540 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.79 55.0 3.61e-01 72.9% 22.6%
5060491 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.75 69.0 5.67e-01 98.6% 65.0%
5052897 3352.1.1.15 alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › GT87 0.75 47.0 2.89e-01 78.6% 11.4%
4944680 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.75 67.0 3.82e-01 98.6% 14.3%
3929962 3877.1.1.0 alpha bundles › Membrane protein insertase YidC-related › Membrane protein insertase YidC-related › Membrane protein insertase YidC 0.72 56.0 3.73e-01 82.9% 23.9%
3406351 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.71 65.0 5.54e-01 100.0% 69.1%
3410018 603.1.1.104 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › 7tm_7 0.70 61.0 3.75e-01 92.9% 47.7%
1204325 2004.1.1.195 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › UvrD_C 0.70 49.0 2.99e-01 75.7% 11.9%
3222949 5001.1.1.106 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Str 0.70 56.0 3.58e-01 87.1% 44.8%
3221467 5001.1.1.106 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Str 0.69 55.0 3.54e-01 87.1% 43.6%
3628950 5001.1.1.60 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srx 0.65 58.0 4.01e-01 100.0% 31.5%
3530014 323.1.1.0 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.64 51.0 2.94e-01 88.6% 74.6%
5050695 3352.1.1.15 alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › GT87 0.60 46.0 2.77e-01 80.0% 19.0%
4619139 633.23.1.21 alpha bundles › Bromodomain-like › Claudin › Claudin › TM140 0.56 48.0 3.61e-01 95.7% 87.4%
4890984 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 38.0 3.44e-01 74.3% 52.0%
D2 medium residues 71-122
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2lo0A00 1.10.286.70 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › Get5 dimerization domain 0.79 55.0 5.85e-01 73.1% 86.7%
3ci0K02 1.10.40.60 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › EpsJ-like 0.77 62.0 4.80e-01 88.5% 42.5%
3fdqA01 1.20.120.1030 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Motility repressor MogR, DNA-binding domain 0.75 64.0 4.88e-01 96.2% 87.7%
2yhsA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.75 65.0 5.29e-01 100.0% 52.6%
3r84B00 6.10.280.160 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Mediator of RNA polymerase II transcription subunit 22 0.74 50.0 4.38e-01 71.2% 80.0%
4a18Q01 1.10.10.1760 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L36 0.73 58.0 5.36e-01 92.3% 68.1%
3lxuX06 1.25.40.710 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.69 54.0 3.54e-01 100.0% 18.4%
1t6jA03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.68 57.0 4.69e-01 100.0% 64.1%
1cpqA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.67 58.0 4.42e-01 100.0% 77.5%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.67 59.0 4.94e-01 98.1% 71.3%
5hdiA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.67 54.0 3.25e-01 94.2% 22.4%
2xqyA01 3.30.500.50 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.67 52.0 3.64e-01 88.5% 32.6%
2el7A02 1.10.240.10 Mainly Alpha › Orthogonal Bundle › Tyrosyl-Transfer RNA Synthetase › Tyrosyl-Transfer RNA Synthetase 0.67 56.0 4.61e-01 94.2% 83.0%
2vlaA01 1.10.10.2080 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.65 55.0 4.92e-01 100.0% 74.4%
2y1vA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 54.0 3.78e-01 100.0% 48.6%
1e3oC02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 45.0 4.62e-01 96.2% 85.4%
1o4xA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 49.0 4.87e-01 98.1% 85.2%
2da3A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.62 46.0 4.71e-01 100.0% 97.9%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.61 50.0 3.95e-01 100.0% 90.4%
4ui9Y03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 48.0 4.31e-01 92.3% 92.5%
2da7A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.60 46.0 4.35e-01 100.0% 69.0%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.59 50.0 3.76e-01 100.0% 52.9%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.59 50.0 4.91e-01 98.1% 96.6%
1k32A03 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.58 44.0 4.08e-01 88.5% 65.3%
1wh5A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.57 45.0 4.09e-01 100.0% 61.3%
1zoyD00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.57 42.0 3.47e-01 80.8% 66.7%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.56 37.0 2.74e-01 71.2% 24.5%
1r3dA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 47.0 3.05e-01 100.0% 24.5%
2hqmA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 44.0 2.89e-01 98.1% 20.6%
3kfwX03 1.20.58.1460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 41.0 3.84e-01 96.2% 85.5%
1x4oA00 1.10.10.790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module 0.54 44.0 3.99e-01 100.0% 74.4%
4fmwA00 3.40.1280.30 Alpha Beta › 3-Layer(aba) Sandwich › Alpha/beta knot › 0.54 45.0 3.10e-01 94.2% 27.5%
5yh1A01 3.90.1640.30 Alpha Beta › Alpha-Beta Complex › inorganic pyrophosphatase (n-terminal core) › 0.53 42.0 2.79e-01 100.0% 61.7%
2ekgB01 6.10.250.3270 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.52 37.0 3.67e-01 94.2% 69.6%
5dukB00 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 0.52 42.0 4.00e-01 98.1% 79.1%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.51 38.0 3.62e-01 94.2% 70.1%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3328316 3721.1.1.1 alpha bundles › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › VIT1 0.80 57.0 5.13e-01 75.0% 62.9%
3960202 3721.1.1.1 alpha bundles › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › VIT1 0.80 56.0 5.10e-01 75.0% 62.9%
3283972 191.1.1.1 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_1 0.79 67.0 5.01e-01 96.2% 52.3%
3518592 102.1.2.28 alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › PF26091 0.79 69.0 5.76e-01 100.0% 71.1%
147067 3276.1.1.1 alpha arrays › N-terminal domain in MogR repressor › N-terminal domain in MogR repressor › N-terminal domain in MogR repressor › MogR_DNAbind 0.78 64.0 5.98e-01 100.0% 73.4%
4073017 101.35.1.0 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.78 62.0 6.13e-01 86.5% 83.6%
3265661 3721.1.1.1 alpha bundles › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › VIT1 0.77 54.0 4.91e-01 75.0% 62.9%
3686464 3721.1.1.0 alpha bundles › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain › Protein regulator of cytokinesis 1 (PRC1) dimerization domain 0.76 54.0 4.78e-01 75.0% 56.0%
4046675 4973.1.1.1 alpha bundles › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core › DnaB_bind 0.76 65.0 5.52e-01 100.0% 58.8%
4126690 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.76 60.0 5.93e-01 86.5% 83.6%
5000613 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 0.75 65.0 5.40e-01 100.0% 55.8%
4452388 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.74 55.0 5.67e-01 82.7% 84.0%
4161600 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.74 57.0 5.78e-01 88.5% 86.0%
4988092 601.29.1.0 alpha bundles › Four-helical up-and-down bundle › TM1646-like › TM1646-like 0.73 61.0 5.36e-01 100.0% 97.6%
4563321 604.9.1.1 alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.73 61.0 5.31e-01 98.1% 65.5%
4520782 181.1.1.1 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › SRP54_N 0.72 63.0 5.22e-01 100.0% 54.7%
3272819 3919.1.1.2 alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN 0.71 63.0 4.95e-01 100.0% 94.5%
4599915 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.71 58.0 5.46e-01 92.3% 76.9%
4145773 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.71 55.0 5.49e-01 86.5% 83.6%
4638215 101.35.1.4 alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.71 56.0 5.75e-01 88.5% 92.0%
3590189 4967.1.1.0 alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.70 56.0 3.99e-01 88.5% 66.3%
3213165 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.69 55.0 4.89e-01 92.3% 66.3%
4677046 3625.1.1.1 alpha bundles › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › CRISPR RNA silencing complex Cmr2 subunit second helical domain › Cmr2_hel_dom2 0.69 58.0 5.25e-01 100.0% 73.3%
4033104 604.15.1.0 alpha bundles › Spectrin repeat-like › Efb C-domain-like › Efb C-domain-like 0.68 57.0 5.35e-01 98.1% 81.5%
4956688 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.68 54.0 4.00e-01 90.4% 99.3%
3569167 3164.1.1.5 few secondary structure elements › Zinc-binding domain in Junin virus envelope glycoprotein › Zinc-binding domain in Junin virus envelope glycoprotein › Zinc-binding domain in Junin virus envelope glycoprotein › ZSWIM1-3_helical 0.67 55.0 5.31e-01 96.2% 88.3%
4037022 604.15.1.1 alpha bundles › Spectrin repeat-like › Efb C-domain-like › Efb C-domain-like › efb-c 0.64 53.0 5.22e-01 96.2% 96.4%
3778380 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.64 50.0 4.66e-01 100.0% 68.6%
3337098 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.64 53.0 4.50e-01 100.0% 56.8%
3935047 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.63 51.0 4.56e-01 98.1% 72.5%
3488292 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 52.0 4.14e-01 96.2% 85.5%
3652032 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.62 48.0 4.43e-01 100.0% 64.0%
4995305 604.5.1.2 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PhoU 0.62 50.0 4.23e-01 96.2% 90.5%
4938119 5058.1.1.0 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.59 44.0 3.63e-01 80.8% 74.0%
3240699 101.1.1.75 alpha arrays › HTH › HTH › Three-helical HTH › HTH_48 0.57 48.0 4.47e-01 100.0% 100.0%
3536325 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.56 45.0 4.49e-01 100.0% 94.5%
2323907 212.1.1.24 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 0.56 47.0 3.14e-01 100.0% 73.1%
3229130 101.1.1.1 alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain 0.55 44.0 4.50e-01 100.0% 100.0%
4964824 101.1.6.44 alpha arrays › HTH › HTH › TrpR › HVO_2833_C 0.53 42.0 3.45e-01 92.3% 48.6%
3880271 11.2.1.7 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › Anillin 0.52 43.0 2.93e-01 98.1% 72.4%
4945441 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 41.0 2.99e-01 92.3% 57.0%