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NC_028950.1__YP_009212877.1__AVU38_gp028__00028

Bact-Vir

NC_028950.1__YP_009212877.1__AVU38_gp028__00028

Identity

Accession:
NC_028950 ↗
Kingdom:
phage

Quality

87.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chimalliviridae› Chiangmaivirus› Ralstonia_phage_RSL2

TaxID: 1585840

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 medium residues 49-86_161-205_230-247
PDB
Domain cluster: rep: OP589283.1__UYE93403.1__X__00006__D60-84_173-214_235-254
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF23806.2 best Phage_TTP_14 54.2 2.10e-14 49.5% 14.7%
PF23806.2 Phage_TTP_14 41.5 1.60e-10 40.6% 12.7%
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bghB01 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.61 45.0 3.78e-01 78.2% 87.1%
1xebA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 33.0 2.94e-01 100.0% 45.0%
2i9iA00 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.51 38.0 3.03e-01 80.2% 77.4%
4fdtB00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.50 42.0 2.89e-01 94.1% 91.7%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3617987 4099.1.1.28 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › PF29108 0.68 36.0 3.88e-01 94.1% 60.0%
3429608 109.4.1.1256 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3 0.65 33.0 1.92e-01 82.2% 5.6%
3670628 244.3.1.1 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › NifU_N 0.60 38.0 3.37e-01 100.0% 44.0%
4059717 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.59 31.0 3.43e-01 86.1% 62.4%
3596849 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 34.0 3.82e-01 80.2% 76.2%
3991508 11.1.5.18 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › CP2 0.56 45.0 3.66e-01 87.1% 79.8%
3510018 11.1.1.13 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Motile_Sperm 0.56 39.0 4.06e-01 77.2% 77.9%
3574468 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 35.0 3.78e-01 80.2% 78.8%
3982234 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 29.0 3.17e-01 76.2% 65.9%
4350601 213.1.1.31 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.51 34.0 2.97e-01 100.0% 44.0%
3429580 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.51 33.0 2.84e-01 84.2% 41.2%
D2 medium residues 87-160_218-229
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF23806.2 best Phage_TTP_14 98.8 5.60e-28 96.5% 25.7%
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.60 54.0 4.61e-01 100.0% 75.2%
4h05B01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 37.0 3.63e-01 96.5% 63.7%
3eaaA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.52 46.0 3.74e-01 100.0% 63.6%
2rioA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 34.0 3.48e-01 96.5% 70.7%
2vf9A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.51 32.0 2.85e-01 100.0% 40.5%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.51 28.0 2.08e-01 94.2% 17.1%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2101663 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.70 64.0 5.13e-01 100.0% 75.5%
3581358 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.67 60.0 4.93e-01 100.0% 77.4%
4995819 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.65 58.0 4.84e-01 100.0% 80.0%
184986 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.61 55.0 4.83e-01 100.0% 83.1%
4888732 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.60 54.0 4.40e-01 100.0% 66.0%
2832217 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.59 52.0 4.44e-01 100.0% 79.6%
4954561 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.58 51.0 4.47e-01 100.0% 83.7%
2471637 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.58 52.0 4.33e-01 100.0% 75.2%
4032562 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.58 51.0 4.49e-01 100.0% 84.6%
4034209 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.58 51.0 4.45e-01 100.0% 82.1%
5003885 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.57 51.0 4.31e-01 100.0% 76.6%
3164699 1.1.13.33 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DNA_circ_N 0.57 50.0 4.59e-01 100.0% 86.1%
4873215 1.1.13.11 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DUF2001 0.57 51.0 4.33e-01 100.0% 75.7%
5004559 1.1.13.75 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › CIS_tube 0.57 49.0 4.30e-01 98.8% 83.7%
3980535 1.1.13.51 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_P2_GpU 0.56 50.0 4.33e-01 100.0% 77.8%
4888726 1.1.13.6 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2 0.56 50.0 4.07e-01 100.0% 65.2%
4033579 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.56 49.0 4.36e-01 100.0% 82.4%
1444177 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.55 48.0 4.17e-01 100.0% 76.5%
1117606 1.1.13.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Dit_N 0.53 46.0 4.04e-01 100.0% 79.1%
3976188 1.1.13.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tube 0.53 48.0 3.86e-01 100.0% 66.1%
3977123 1.1.5.23 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › T6SS_HCP 0.53 48.0 3.88e-01 100.0% 64.4%
136185 1.1.5.23 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › T6SS_HCP 0.52 46.0 3.74e-01 100.0% 63.6%
143109 2007.1.1.9 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › GATase1_like 0.51 28.0 2.08e-01 94.2% 17.1%
3613595 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 39.0 2.66e-01 86.0% 84.9%