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NC_041911.1__YP_009598792.1__FDH28_gp099__00099

Bact-Vir

NC_041911.1__YP_009598792.1__FDH28_gp099__00099

Identity

Accession:
NC_041911 ↗
Kingdom:
phage

Quality

87.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chimalliviridae› Ripduovirus› Ralstonia_phage_RP12

TaxID: 1923889

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 26-110
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.83 75.0 7.01e-01 97.6% 99.0%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.74 49.0 5.46e-01 71.8% 85.3%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.73 51.0 4.52e-01 72.9% 52.1%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.69 55.0 5.63e-01 100.0% 91.4%
4iloA00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 47.0 3.36e-01 71.8% 28.0%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 46.0 4.91e-01 70.6% 89.0%
3favD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.67 48.0 4.97e-01 75.3% 87.2%
3na7A00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 46.0 3.36e-01 71.8% 70.9%
4i0xG00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.66 44.0 4.82e-01 71.8% 85.3%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.66 43.0 4.59e-01 71.8% 75.0%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 46.0 4.28e-01 71.8% 67.6%
1dkxA02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 54.0 5.54e-01 95.3% 97.5%
3nkzA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.65 44.0 4.24e-01 75.3% 60.8%
2rd0B00 1.10.287.1490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 44.0 3.76e-01 71.8% 44.6%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.64 42.0 4.01e-01 72.9% 58.8%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.63 44.0 4.58e-01 71.8% 79.2%
1uurA01 1.20.58.240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › STAT; domain 1 0.63 44.0 4.03e-01 71.8% 56.4%
3t46A00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.63 48.0 5.01e-01 85.9% 92.0%
3u61D03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.63 45.0 4.41e-01 84.7% 70.3%
1fewA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 57.0 4.35e-01 96.5% 75.1%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.62 45.0 3.96e-01 85.9% 52.4%
2rdcA00 1.10.287.800 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › protein ne1242 0.60 50.0 4.29e-01 89.4% 63.2%
6gy8A01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.60 54.0 3.60e-01 98.8% 64.2%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.60 42.0 4.43e-01 71.8% 84.0%
3eabE00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.58 49.0 4.92e-01 90.6% 100.0%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.58 44.0 4.10e-01 84.7% 65.7%
4lwsA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.57 40.0 3.82e-01 72.9% 62.0%
3hx3A01 1.10.8.20 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › N-terminal domain of phosphatidylinositol transfer protein sec14p 0.57 39.0 4.27e-01 78.8% 88.1%
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 0.57 48.0 3.78e-01 91.8% 90.1%
3i2fA02 1.10.3020.10 Mainly Alpha › Orthogonal Bundle › alpha-amino acid ester hydrolase ( Helical cap domain) › alpha-amino acid ester hydrolase ( Helical cap domain) 0.57 41.0 3.99e-01 85.9% 68.4%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.57 43.0 4.11e-01 80.0% 93.8%
4a4kA01 1.20.1500.20 Mainly Alpha › Up-down Bundle › YheA-like fold › 0.56 37.0 3.40e-01 70.6% 49.6%
3cxbA03 1.10.1740.30 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Secreted effector protein SifA helical domain 0.56 45.0 4.65e-01 91.8% 91.4%
2gd5A00 6.10.140.1230 Special › Helix non-globular › Helix Hairpins › 0.55 40.0 3.45e-01 77.6% 73.2%
1x3aA00 1.10.3970.10 Mainly Alpha › Orthogonal Bundle › BSD domain-like fold › BSD domain 0.55 38.0 3.67e-01 72.9% 93.0%
3piwA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.55 47.0 3.95e-01 98.8% 88.3%
4gzrB00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.54 39.0 4.05e-01 75.3% 83.1%
2icwG02 1.10.10.530 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › mam-mhc complex, Chain D, Domain 2 0.54 37.0 3.69e-01 76.5% 67.4%
3zbhA00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.54 37.0 3.71e-01 74.1% 68.9%
4i1eA03 1.25.10.30 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › IP3 receptor type 1 binding core, RIH domain 0.54 50.0 4.18e-01 100.0% 82.7%
4h33A00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 38.0 3.72e-01 97.6% 68.1%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.53 46.0 4.80e-01 94.1% 100.0%
1rfyB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.52 41.0 4.09e-01 82.4% 80.7%
1ie9A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.50 45.0 3.20e-01 98.8% 59.2%
ECOD (51)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3232705 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.78 70.0 6.29e-01 96.5% 79.1%
4090640 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.76 64.0 6.20e-01 90.6% 89.5%
3224363 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.75 60.0 6.10e-01 85.9% 100.0%
3970705 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.74 59.0 6.05e-01 89.4% 91.3%
3789508 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.74 56.0 6.02e-01 80.0% 97.1%
4371507 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.72 61.0 5.89e-01 91.8% 90.5%
4016062 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.72 59.0 6.00e-01 91.8% 97.6%
5044069 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.72 59.0 6.03e-01 94.1% 93.8%
5047712 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.72 57.0 5.98e-01 84.7% 100.0%
4943584 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.72 58.0 5.97e-01 88.2% 98.8%
5075392 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.71 62.0 5.47e-01 100.0% 74.6%
3281161 632.22.1.100 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › PF28103 0.71 61.0 6.14e-01 92.9% 91.8%
4438700 622.1.1.0 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain 0.71 50.0 5.08e-01 74.1% 78.8%
4209005 632.15.1.4 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › HSP70 0.71 61.0 6.30e-01 96.5% 98.8%
3567213 109.3.1.176 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_2, Ank_3, Ank_4 0.70 60.0 4.49e-01 97.6% 39.1%
3476205 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 0.70 55.0 4.15e-01 83.5% 36.5%
4129856 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.70 61.0 6.16e-01 96.5% 94.1%
4012697 632.15.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) 0.68 55.0 5.70e-01 95.3% 93.8%
3989535 632.6.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit › Plasmid maintenance system epsilon/zeta, antidote epsilon subunit 0.68 57.0 5.52e-01 95.3% 92.6%
5034821 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.67 52.0 5.67e-01 83.5% 100.0%
5062656 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.67 55.0 5.52e-01 100.0% 90.6%
4034406 632.15.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) › CompInhib_SCIN 0.67 57.0 5.77e-01 97.6% 94.1%
5036931 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.66 59.0 5.46e-01 100.0% 82.7%
3306976 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.66 46.0 3.99e-01 71.8% 89.2%
3478280 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 47.0 3.13e-01 74.1% 26.8%
3446022 3770.1.1.0 ↗ alpha arrays › Flax-rust effector AvrM › Flax-rust effector AvrM › Flax-rust effector AvrM 0.64 45.0 4.56e-01 71.8% 85.9%
4971143 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.64 56.0 5.64e-01 95.3% 100.0%
4936790 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.64 45.0 4.16e-01 71.8% 75.2%
4955756 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.64 51.0 5.33e-01 85.9% 100.0%
3940891 3291.1.1.0 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.64 46.0 3.85e-01 75.3% 65.5%
4031187 632.19.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A › DUF1542 0.64 51.0 5.29e-01 88.2% 100.0%
3804522 1147.1.1.1 ↗ alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL 0.64 44.0 3.95e-01 71.8% 50.8%
3682710 2004.1.1.529 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_11, DUF6469 0.63 46.0 2.90e-01 77.6% 18.5%
3197864 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 0.62 43.0 4.14e-01 71.8% 91.0%
1293726 150.7.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PE › PE › PE 0.62 43.0 4.33e-01 71.8% 81.2%
4979114 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.62 49.0 4.30e-01 84.7% 87.2%
3977082 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.62 53.0 4.70e-01 96.5% 68.8%
4170026 140.1.1.7 ↗ 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 › DALR_2 0.62 54.0 4.57e-01 96.5% 60.7%
3438255 622.4.1.0 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.61 43.0 4.59e-01 75.3% 86.7%
3658495 6155.1.1.1 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv 0.60 44.0 3.97e-01 80.0% 58.4%
3431415 6155.1.1.6 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › DUF2921 0.59 54.0 5.41e-01 96.5% 95.3%
4603998 140.1.1.7 ↗ 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 › DALR_2 0.59 51.0 4.40e-01 97.6% 77.1%
4324180 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.58 41.0 3.89e-01 72.9% 91.0%
1495253 150.5.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like › WXG100 0.57 40.0 3.82e-01 72.9% 62.0%
3567338 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.55 41.0 2.77e-01 77.6% 28.2%
3425801 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.53 44.0 3.18e-01 92.9% 71.9%
3401562 616.1.1.0 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain 0.53 37.0 3.66e-01 71.8% 68.9%
4942789 4323.1.1.0 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.53 36.0 3.19e-01 72.9% 88.6%
3859640 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.52 47.0 3.58e-01 97.6% 73.7%
4959463 6155.1.1.2 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.51 42.0 4.35e-01 91.8% 100.0%
4031434 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.51 45.0 4.53e-01 96.5% 96.5%