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MG983743.2__AVO23141.1__RIVERRIDER_60__00053

Bact-Vir

MG983743.2__AVO23141.1__RIVERRIDER_60__00053

Identity

Accession:
MG983743 ↗
Kingdom:
phage

Quality

73.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Riverridervirus› Xanthomonas_phage_RiverRider

TaxID: 2108116

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 181-233
PDB
Domain cluster: rep: OP562166.1__UZV39836.1__X__00050__D72-123
D2 high residues 626-760
PDB
Domain cluster: rep: rifoxyc1_full_scaffold_3_prodigal-single.1__X__X__00157__D2-120
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00386.28 best C1q 31.4 2.70e-07 90.4% 70.9%
D3 medium residues 72-160
PDB
Domain cluster: rep: NC_049463.1__YP_009883686.1__HYP93_gp76__00058__D73-152
D4 medium residues 378-460
PDB
Domain cluster: rep: IMGVR_UViG_3300029959_001475-3300029959-Ga0272380_100422723__D80-169
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3g0kA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.72 45.0 3.85e-01 80.7% 40.6%
4u13A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.71 42.0 3.80e-01 77.1% 45.0%
4n6tA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.68 44.0 4.51e-01 78.3% 68.4%
2bbhA01 3.30.460.20 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › CorA soluble domain-like 0.67 38.0 3.11e-01 72.3% 30.5%
2kxgA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.66 46.0 4.38e-01 79.5% 62.1%
3tzgA00 2.40.160.150 Mainly Beta › Beta Barrel › Porin › 0.62 55.0 3.99e-01 100.0% 59.0%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.62 40.0 4.59e-01 72.3% 91.5%
3ec9A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 42.0 3.64e-01 83.1% 48.8%
2ciuA00 3.10.450.320 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Mitochondrial import inner membrane translocase subunit Tim21 0.57 46.0 4.06e-01 88.0% 65.0%
1tu5A02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 43.0 3.79e-01 90.4% 54.3%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 42.0 3.73e-01 80.7% 94.3%
5nl8A00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.56 50.0 3.86e-01 100.0% 54.1%
1kpsC00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.54 43.0 3.52e-01 86.7% 50.0%
8a7dC01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 44.0 3.30e-01 91.6% 43.1%
3d4eA02 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.53 45.0 4.62e-01 90.4% 100.0%
3ig4A02 3.90.230.10 Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily 0.53 46.0 3.30e-01 96.4% 35.9%
5jv4A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 39.0 3.35e-01 80.7% 90.1%
2lpuA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 43.0 3.64e-01 96.4% 68.9%
3cyjA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 36.0 3.20e-01 74.7% 84.4%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1679989 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.94 89.0 5.89e-01 100.0% 29.7%
3227176 243.1.1.0 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.63 49.0 4.23e-01 88.0% 53.9%
4129418 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.62 51.0 4.29e-01 89.2% 92.6%
4023691 4096.1.1.1 ↗ a+b two layers › NAP-like › NAP-like › NAP-like › NAP 0.58 51.0 3.68e-01 100.0% 71.2%
3245973 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.57 42.0 2.73e-01 81.9% 32.9%
3412552 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.55 42.0 3.23e-01 81.9% 80.5%
2138994 5.1.3.25 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Mcl1_mid 0.52 42.0 2.91e-01 89.2% 78.0%
3405875 378.1.1.1 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_NS 0.51 42.0 3.25e-01 92.8% 84.4%
3993970 2.9.1.1 ↗ beta barrels › OB-fold › RNB domain-like › RNB domain-like › RNB 0.51 43.0 2.82e-01 96.4% 78.7%
3576235 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 35.0 3.66e-01 72.3% 81.3%
D5 medium residues 461-514
PDB
D6 medium residues 515-622
PDB
Domain cluster: rep: IMGVR_UViG_3300029959_001475-3300029959-Ga0272380_100422723__D80-169
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rbyA02 2.40.128.310 Mainly Beta › Beta Barrel › Lipocalin › Protein HRI1, C-terminal domain 0.62 32.0 3.41e-01 71.3% 55.8%
3f7sA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 37.0 3.42e-01 85.2% 47.2%
3mswA00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.53 44.0 4.14e-01 94.4% 81.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1679989 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.75 70.0 5.06e-01 100.0% 65.6%
3804152 5.1.4.173 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR75_2nd 0.50 42.0 3.05e-01 96.3% 39.2%