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NC_016165.1__YP_004934683.1__RcapMu40__00040

Bact-Vir

NC_016165.1__YP_004934683.1__RcapMu40__00040

Identity

Accession:
NC_016165 ↗
Kingdom:
phage

Quality

86.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodobacter_phage_RcapMu

TaxID: 1105286

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 6-89
PDB
Domain cluster: rep: JF974315.1__AGN38697.1__RHYG_00028__00028__D233-310
D2 medium residues 97-151
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6usmB01 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.66 53.0 3.89e-01 87.3% 56.5%
2wjwA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.65 50.0 3.36e-01 81.8% 79.5%
3solA00 1.20.58.1630 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS 0.65 47.0 4.01e-01 78.2% 54.9%
2ymmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.63 52.0 4.73e-01 98.2% 68.5%
2w43A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.62 49.0 4.93e-01 94.5% 84.2%
1x42A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.61 49.0 4.28e-01 100.0% 59.0%
4muoA02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.60 54.0 3.50e-01 100.0% 98.7%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.60 50.0 4.58e-01 98.2% 69.3%
4hvlA00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.59 51.0 3.13e-01 100.0% 47.2%
1sh7A00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.59 51.0 3.28e-01 98.2% 80.8%
2w2oA00 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.58 48.0 3.10e-01 92.7% 75.2%
1wlmA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 48.0 4.00e-01 98.2% 52.4%
1ym3A00 3.40.1050.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase 0.56 47.0 3.30e-01 98.2% 54.9%
3e15A00 3.40.50.1360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 43.0 2.72e-01 83.6% 50.2%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.53 37.0 3.26e-01 78.2% 52.6%
3q9oA02 3.90.1350.10 Alpha Beta › Alpha-Beta Complex › Exotoxin A, middle domain › Exotoxin A, middle domain 0.52 46.0 3.28e-01 100.0% 78.4%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3951674 191.1.1.26 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_24 0.66 55.0 4.01e-01 89.1% 62.2%
3960407 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.65 56.0 4.05e-01 90.9% 60.7%
1031090 3705.1.1.1 ↗ alpha arrays › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › Bacterial chaperone lipoprotein (PulS_OutS) › T2SS_PulS_OutS 0.65 47.0 4.01e-01 78.2% 54.9%
3741476 101.1.2.527 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_RGF3 0.64 55.0 4.46e-01 94.5% 62.0%
2776079 3787.1.1.0 ↗ alpha bundles › HAD superfamily helical bundle insertion domain 0.62 51.0 5.11e-01 98.2% 89.5%
3519864 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.62 53.0 4.51e-01 100.0% 65.3%
4979468 4041.1.1.0 ↗ a+b complex topology › insertion domain in beta subunit of DNA dependent RNA-polymerase › insertion domain in beta subunit of DNA dependent RNA-polymerase › insertion domain in beta subunit of DNA dependent RNA-polymerase 0.60 49.0 3.56e-01 98.2% 55.0%
3281267 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.60 51.0 3.58e-01 100.0% 66.8%
2075033 3787.1.1.0 ↗ alpha bundles › HAD superfamily helical bundle insertion domain 0.60 48.0 4.39e-01 98.2% 65.8%
3930447 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.59 49.0 3.62e-01 100.0% 81.2%
4241086 2005.1.1.2 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1b 0.58 49.0 3.08e-01 100.0% 84.6%
3520747 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.58 43.0 2.96e-01 81.8% 37.1%
3838579 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.57 39.0 3.51e-01 94.5% 50.0%
3239642 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.56 45.0 2.99e-01 98.2% 58.2%
3547257 604.1.1.115 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PANTS-like 0.55 41.0 3.78e-01 78.2% 71.4%
3213253 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.53 44.0 3.18e-01 98.2% 32.8%
3539112 633.1.1.0 ↗ alpha bundles › Bromodomain-like › Bromodomain › Bromodomain 0.50 39.0 3.29e-01 85.5% 55.8%