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NC_041911.1__YP_009598865.1__FDH28_gp249__00172

Bact-Vir

NC_041911.1__YP_009598865.1__FDH28_gp249__00172

Identity

Accession:
NC_041911 ↗
Kingdom:
phage

Quality

90.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chimalliviridae› Ripduovirus› Ralstonia_phage_RP12

TaxID: 1923889

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 13-120
PDB
Domain cluster: rep: MF360958.1__ASV44369.1__PBI_SCTP2_354__00354__D2-109
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ugiD00 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.68 41.0 4.69e-01 70.4% 80.5%
4eqaC00 2.40.128.650 Mainly Beta › Beta Barrel › Lipocalin › 0.66 36.0 3.23e-01 73.1% 38.0%
4r8oA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.63 40.0 4.18e-01 75.0% 70.4%
7d8gA01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.62 54.0 4.67e-01 100.0% 61.7%
6phxA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 31.0 3.31e-01 84.3% 55.8%
2w4yA00 2.40.160.220 Mainly Beta › Beta Barrel › Porin › 0.58 36.0 3.50e-01 77.8% 56.6%
1lf7A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 39.0 3.37e-01 100.0% 47.0%
1h54A03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.54 31.0 3.59e-01 92.6% 81.1%
3zt9A00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.53 45.0 3.75e-01 93.5% 96.9%
1p32B00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.53 47.0 4.03e-01 98.1% 74.9%
4jglA00 2.40.128.530 Mainly Beta › Beta Barrel › Lipocalin › 0.52 46.0 4.08e-01 94.4% 78.9%
1h91A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 37.0 3.13e-01 100.0% 44.4%
3p0lD00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 39.0 3.27e-01 94.4% 47.6%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3171956 9.1.1.45 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › FBO_C 0.73 42.0 3.75e-01 73.1% 41.3%
4024769 9.11.1.0 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like 0.73 39.0 4.94e-01 71.3% 87.7%
3715886 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.61 42.0 2.83e-01 100.0% 20.3%
5014277 274.1.1.0 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.58 33.0 3.68e-01 74.1% 70.6%
3484575 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.58 40.0 3.87e-01 74.1% 64.2%
3614530 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 43.0 4.21e-01 77.8% 84.3%
3596980 844.1.1.0 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain 0.56 49.0 3.91e-01 94.4% 54.6%
None — 0.54 36.0 4.01e-01 87.0% 87.1%
3699678 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.53 49.0 4.02e-01 100.0% 62.6%
3593405 897.1.1.0 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 0.53 48.0 4.16e-01 100.0% 70.0%
3515760 11.1.1.53 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DOMON 0.53 39.0 3.47e-01 100.0% 52.5%
3456369 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.53 47.0 4.00e-01 100.0% 67.0%
3415735 216.1.1.20 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.53 38.0 4.03e-01 95.4% 85.3%
3425526 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.53 48.0 4.01e-01 100.0% 60.1%
4027918 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.53 48.0 4.19e-01 100.0% 75.0%
5046458 844.1.1.2 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.52 47.0 4.03e-01 100.0% 90.9%
3331262 216.1.1.20 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.52 37.0 3.94e-01 97.2% 84.2%
224086 9.18.1.0 ↗ beta barrels › Lipocalins/Streptavidin 0.52 46.0 4.08e-01 94.4% 78.9%
3957060 325.1.6.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.52 38.0 3.42e-01 75.9% 64.8%
5002666 868.1.1.1 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.52 38.0 3.16e-01 99.1% 42.0%
3680674 897.1.1.1 ↗ a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.52 46.0 3.80e-01 100.0% 66.2%
3406725 5087.2.1.2 ↗ beta meanders › Lipovitellin-phosvitin complex › Lipovitellin LV-1N › Lipovitellin LV-1N › PF29934 0.51 45.0 3.44e-01 100.0% 74.1%
4984586 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.51 38.0 3.85e-01 98.1% 78.2%
4008120 5.1.5.139 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DUF1481 0.50 46.0 4.45e-01 100.0% 92.5%